Diff of the two buildlogs: -- --- b1/build.log 2021-12-10 14:42:27.015861733 +0000 +++ b2/build.log 2021-12-10 14:47:48.237860935 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Dec 10 02:37:54 -12 2021 -I: pbuilder-time-stamp: 1639147074 +I: Current time: Fri Jan 13 11:05:29 +14 2023 +I: pbuilder-time-stamp: 1673557529 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration @@ -17,7 +17,7 @@ I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error -gpgv: Signature made Tue Jan 1 13:44:11 2019 -12 +gpgv: Signature made Wed Jan 2 15:44:11 2019 +14 gpgv: using RSA key 90E2D2C1AD146A1B7EBB891DBBC17EBB1396F2F7 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./pymol_2.2.0+dfsg-4.dsc @@ -40,136 +40,170 @@ dpkg-source: info: applying 70_glext-fix.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/347362/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2804822/tmp/hooks/D01_modify_environment starting +debug: Running on ionos5-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/2804822/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2804822/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="0" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.0.3(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='4a3aa00b3d5645c793d9d345aea6ec1b' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='347362' - PS1='# ' - PS2='> ' + INVOCATION_ID=97d62942455e48daaece49724c51061e + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=2804822 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.jlQeHPDThf/pbuilderrc_Sjj8 --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.jlQeHPDThf/b1 --logfile b1/build.log pymol_2.2.0+dfsg-4.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://78.137.99.97:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.jlQeHPDThf/pbuilderrc_wCrs --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.jlQeHPDThf/b2 --logfile b2/build.log pymol_2.2.0+dfsg-4.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://85.184.249.68:3128 I: uname -a - Linux ionos11-amd64 5.10.0-9-amd64 #1 SMP Debian 5.10.70-1 (2021-09-30) x86_64 GNU/Linux + Linux i-capture-the-hostname 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux I: ls -l /bin total 5116 - -rwxr-xr-x 1 root root 1168776 Apr 17 2019 bash - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bunzip2 - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzcat - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep - -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzip2 - -rwxr-xr-x 1 root root 14328 Jul 10 2019 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore - -rwxr-xr-x 1 root root 43744 Feb 28 2019 cat - -rwxr-xr-x 1 root root 64320 Feb 28 2019 chgrp - -rwxr-xr-x 1 root root 64288 Feb 28 2019 chmod - -rwxr-xr-x 1 root root 72512 Feb 28 2019 chown - -rwxr-xr-x 1 root root 146880 Feb 28 2019 cp - -rwxr-xr-x 1 root root 121464 Jan 17 2019 dash - -rwxr-xr-x 1 root root 109408 Feb 28 2019 date - -rwxr-xr-x 1 root root 76712 Feb 28 2019 dd - -rwxr-xr-x 1 root root 93744 Feb 28 2019 df - -rwxr-xr-x 1 root root 138856 Feb 28 2019 dir - -rwxr-xr-x 1 root root 84288 Jan 9 2019 dmesg - lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname - -rwxr-xr-x 1 root root 39520 Feb 28 2019 echo - -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep - -rwxr-xr-x 1 root root 35424 Feb 28 2019 false - -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep - -rwxr-xr-x 1 root root 68880 Jan 9 2019 findmnt - -rwsr-xr-x 1 root root 34896 Apr 22 2020 fusermount - -rwxr-xr-x 1 root root 198976 Jan 7 2019 grep - -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip - -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe - -rwxr-xr-x 1 root root 98048 Jan 5 2019 gzip - -rwxr-xr-x 1 root root 26696 Sep 26 2018 hostname - -rwxr-xr-x 1 root root 68552 Feb 28 2019 ln - -rwxr-xr-x 1 root root 56760 Jul 26 2018 login - -rwxr-xr-x 1 root root 138856 Feb 28 2019 ls - -rwxr-xr-x 1 root root 108624 Jan 9 2019 lsblk - -rwxr-xr-x 1 root root 89088 Feb 28 2019 mkdir - -rwxr-xr-x 1 root root 68544 Feb 28 2019 mknod - -rwxr-xr-x 1 root root 43808 Feb 28 2019 mktemp - -rwxr-xr-x 1 root root 43008 Jan 9 2019 more - -rwsr-xr-x 1 root root 51280 Jan 9 2019 mount - -rwxr-xr-x 1 root root 14408 Jan 9 2019 mountpoint - -rwxr-xr-x 1 root root 138728 Feb 28 2019 mv - lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 39616 Feb 28 2019 pwd - lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash - -rwxr-xr-x 1 root root 47776 Feb 28 2019 readlink - -rwxr-xr-x 1 root root 68416 Feb 28 2019 rm - -rwxr-xr-x 1 root root 47776 Feb 28 2019 rmdir - -rwxr-xr-x 1 root root 23312 Jan 21 2019 run-parts - -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Nov 7 09:58 sh -> dash - -rwxr-xr-x 1 root root 39552 Feb 28 2019 sleep - -rwxr-xr-x 1 root root 80672 Feb 28 2019 stty - -rwsr-xr-x 1 root root 63568 Jan 9 2019 su - -rwxr-xr-x 1 root root 35488 Feb 28 2019 sync - -rwxr-xr-x 1 root root 445560 Apr 23 2019 tar - -rwxr-xr-x 1 root root 14440 Jan 21 2019 tempfile - -rwxr-xr-x 1 root root 97152 Feb 28 2019 touch - -rwxr-xr-x 1 root root 35424 Feb 28 2019 true - -rwxr-xr-x 1 root root 14328 Apr 22 2020 ulockmgr_server - -rwsr-xr-x 1 root root 34888 Jan 9 2019 umount - -rwxr-xr-x 1 root root 39584 Feb 28 2019 uname - -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress - -rwxr-xr-x 1 root root 138856 Feb 28 2019 vdir - -rwxr-xr-x 1 root root 34896 Jan 9 2019 wdctl - -rwxr-xr-x 1 root root 946 Jan 21 2019 which - lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat - -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp - -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff - -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep - -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep - -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce - -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep - -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless - -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore - -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew -I: user script /srv/workspace/pbuilder/347362/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1168776 Apr 18 2019 bash + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bunzip2 + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzcat + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep + -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzip2 + -rwxr-xr-x 1 root root 14328 Jul 11 2019 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore + -rwxr-xr-x 1 root root 43744 Mar 1 2019 cat + -rwxr-xr-x 1 root root 64320 Mar 1 2019 chgrp + -rwxr-xr-x 1 root root 64288 Mar 1 2019 chmod + -rwxr-xr-x 1 root root 72512 Mar 1 2019 chown + -rwxr-xr-x 1 root root 146880 Mar 1 2019 cp + -rwxr-xr-x 1 root root 121464 Jan 18 2019 dash + -rwxr-xr-x 1 root root 109408 Mar 1 2019 date + -rwxr-xr-x 1 root root 76712 Mar 1 2019 dd + -rwxr-xr-x 1 root root 93744 Mar 1 2019 df + -rwxr-xr-x 1 root root 138856 Mar 1 2019 dir + -rwxr-xr-x 1 root root 84288 Jan 10 2019 dmesg + lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname + -rwxr-xr-x 1 root root 39520 Mar 1 2019 echo + -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep + -rwxr-xr-x 1 root root 35424 Mar 1 2019 false + -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep + -rwxr-xr-x 1 root root 68880 Jan 10 2019 findmnt + -rwsr-xr-x 1 root root 34896 Apr 23 2020 fusermount + -rwxr-xr-x 1 root root 198976 Jan 8 2019 grep + -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip + -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe + -rwxr-xr-x 1 root root 98048 Jan 6 2019 gzip + -rwxr-xr-x 1 root root 26696 Sep 27 2018 hostname + -rwxr-xr-x 1 root root 68552 Mar 1 2019 ln + -rwxr-xr-x 1 root root 56760 Jul 27 2018 login + -rwxr-xr-x 1 root root 138856 Mar 1 2019 ls + -rwxr-xr-x 1 root root 108624 Jan 10 2019 lsblk + -rwxr-xr-x 1 root root 89088 Mar 1 2019 mkdir + -rwxr-xr-x 1 root root 68544 Mar 1 2019 mknod + -rwxr-xr-x 1 root root 43808 Mar 1 2019 mktemp + -rwxr-xr-x 1 root root 43008 Jan 10 2019 more + -rwsr-xr-x 1 root root 51280 Jan 10 2019 mount + -rwxr-xr-x 1 root root 14408 Jan 10 2019 mountpoint + -rwxr-xr-x 1 root root 138728 Mar 1 2019 mv + lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 39616 Mar 1 2019 pwd + lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash + -rwxr-xr-x 1 root root 47776 Mar 1 2019 readlink + -rwxr-xr-x 1 root root 68416 Mar 1 2019 rm + -rwxr-xr-x 1 root root 47776 Mar 1 2019 rmdir + -rwxr-xr-x 1 root root 23312 Jan 22 2019 run-parts + -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Jan 13 11:05 sh -> bash + lrwxrwxrwx 1 root root 4 Dec 11 18:21 sh.distrib -> dash + -rwxr-xr-x 1 root root 39552 Mar 1 2019 sleep + -rwxr-xr-x 1 root root 80672 Mar 1 2019 stty + -rwsr-xr-x 1 root root 63568 Jan 10 2019 su + -rwxr-xr-x 1 root root 35488 Mar 1 2019 sync + -rwxr-xr-x 1 root root 445560 Apr 24 2019 tar + -rwxr-xr-x 1 root root 14440 Jan 22 2019 tempfile + -rwxr-xr-x 1 root root 97152 Mar 1 2019 touch + -rwxr-xr-x 1 root root 35424 Mar 1 2019 true + -rwxr-xr-x 1 root root 14328 Apr 23 2020 ulockmgr_server + -rwsr-xr-x 1 root root 34888 Jan 10 2019 umount + -rwxr-xr-x 1 root root 39584 Mar 1 2019 uname + -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress + -rwxr-xr-x 1 root root 138856 Mar 1 2019 vdir + -rwxr-xr-x 1 root root 34896 Jan 10 2019 wdctl + -rwxr-xr-x 1 root root 946 Jan 22 2019 which + lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat + -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp + -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff + -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep + -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep + -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce + -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep + -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless + -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore + -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew +I: user script /srv/workspace/pbuilder/2804822/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -529,7 +563,7 @@ Get: 282 http://deb.debian.org/debian buster/main amd64 xdg-utils all 1.1.3-1+deb10u1 [73.7 kB] Get: 283 http://deb.debian.org/debian buster/main amd64 texlive-base all 2018.20190227-2 [19.7 MB] Get: 284 http://deb.debian.org/debian buster/main amd64 texlive-latex-base all 2018.20190227-2 [984 kB] -Fetched 238 MB in 7s (33.5 MB/s) +Fetched 238 MB in 3s (73.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19195 files and directories currently installed.) @@ -1713,7 +1747,8 @@ fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/pymol-2.2.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../pymol_2.2.0+dfsg-4_source.changes +hostname: Name or service not known +I: Running cd /build/pymol-2.2.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../pymol_2.2.0+dfsg-4_source.changes dpkg-buildpackage: info: source package pymol dpkg-buildpackage: info: source version 2.2.0+dfsg-4 dpkg-buildpackage: info: source distribution unstable @@ -2013,24 +2048,21 @@ creating build/temp.linux-amd64-2.7/ov/src x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c build/generated/ShaderText.cpp -o build/temp.linux-amd64-2.7/build/generated/ShaderText.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -In file included from contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:42: -contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:437:18: warning: function declaration isn't a prototype [-Wstrict-prototypes] - static qmdata_t* init_qmdata() { - ^~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function 'read_next_timestep': contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:103:10: warning: variable 'numatoms' set but not used [-Wunused-but-set-variable] int i, numatoms; @@ -2039,17 +2071,6 @@ contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:78:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] fread(&filen, sizeof(namdbin_int32), 1, fd); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp: In function 'void* open_grid_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:84:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(&dataBegin, sizeof(int), 1, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function 'PlugIOManagerInitAll': -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:267:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - if(ok) ok = ok && (molfile_xyzplugin_init() == VMDPLUGIN_SUCCESS); - ^~ -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:269:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - if(ok) { - ^~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function 'int read_mol2_timestep(void*, int, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:275:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, mol2->file); @@ -2071,13 +2092,6 @@ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:138:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, mol2->file); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function 'PlugIOManagerFreeAll': -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:405:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - if(ok) ok = ok && (molfile_xyzplugin_fini() == VMDPLUGIN_SUCCESS); - ^~ -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:407:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - return ok; - ^~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function 'void* open_mol2_read(const char*, const char*, int*)': contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:74:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); @@ -2094,10 +2108,32 @@ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:92:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); // Read the charge_type ~~~~~^~~~~~~~~~~~~~~~~~~~ +In file included from contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:42: +contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:437:18: warning: function declaration isn't a prototype [-Wstrict-prototypes] + static qmdata_t* init_qmdata() { + ^~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp: In function 'void* open_grid_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:84:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(&dataBegin, sizeof(int), 1, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function 'PlugIOManagerInitAll': +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:267:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + if(ok) ok = ok && (molfile_xyzplugin_init() == VMDPLUGIN_SUCCESS); + ^~ +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:269:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + if(ok) { + ^~ +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function 'PlugIOManagerFreeAll': +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:405:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + if(ok) ok = ok && (molfile_xyzplugin_fini() == VMDPLUGIN_SUCCESS); + ^~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function 'int read_brix_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:247:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(brick, sizeof(char), 512, fd); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:407:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + return ok; + ^~~~~~ contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function 'void* open_brix_read(const char*, const char*, int*)': contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:79:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] fscanf(fd, "%3s", keyWord); @@ -2133,6 +2169,10 @@ contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:91:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(fileHeader, sizeof(short), 19, fd); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp: In function 'void* open_fs4_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:79:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(&dataBegin, sizeof(int), 1, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:41: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] static vasp_plugindata_t *vasp_plugindata_malloc() @@ -2167,6 +2207,44 @@ contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:131:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:39: +contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] + static vasp_plugindata_t *vasp_plugindata_malloc() + ^~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_timestep': +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:283:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_structure': +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:228:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 4; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:233:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:237:32: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 2; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:252:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 10 - data->version; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'open_vaspxdatcar_read': +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:89:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:92:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:97:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:111:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:121:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)': contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:96:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 80, infile); @@ -2189,7 +2267,9 @@ contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:171:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 80, infile); ~~~~~^~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function 'void* open_plt_read(const char*, const char*, int*)': contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:69:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(intHeader, sizeof(int), 5, fd); @@ -2197,60 +2277,37 @@ contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:82:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(floatHeader, sizeof(float), 6, fd); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp: In function 'void* open_fs4_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:79:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(&dataBegin, sizeof(int), 1, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function 'void* open_cube_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:175:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 1023, cube->fd); // go on to next line + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:181:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 1023, cube->fd); // skip second header line + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:324:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 1023, cube->fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:335:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 1023, cube->fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:337:11: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(cube->fd, "%d", &cube->nsets); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:342:13: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(cube->fd, "%d", &orb); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:347:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 1023, cube->fd); // gobble up rest of line + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function 'int read_bgf_timestep(void*, int, molfile_timestep_t*)': -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, bgf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:252:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, bgf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function 'int read_bgf_bonds_aux(void*, int*, int**, int**, float**)': -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:328:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, bgf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:346:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, bgf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:355:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(nextline, LINESIZE, bgf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:419:14: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, bgf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function 'int read_bgf_structure(void*, int*, molfile_atom_t*)': -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:194:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, bgf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:203:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, bgf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function 'void* open_bgf_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:59:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30: -contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function 'int mdio_readline(md_file*, char*, int, int)': -contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:426:7: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(buf, n, mf->f); - ~~~~~^~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49: contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:437:18: warning: function declaration isn't a prototype [-Wstrict-prototypes] static qmdata_t* init_qmdata() { ^~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'read_molden_rundata': contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:596:25: warning: variable 'hessian_data' set but not used [-Wunused-but-set-variable] molfile_qm_hessian_t *hessian_data; @@ -2290,6 +2347,21 @@ contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:305:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'count_orbitals': +contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1165:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] + fscanf(data->file, " Ene= %f\n", &orbenergy); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1166:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] + fscanf(data->file, " Spin= %s\n", spin); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1167:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] + fscanf(data->file, " Occup= %f\n", &occu); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49: +contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function 'eatline': +contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 1024, fd); + ^~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function 'open_car_read': contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:169:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); @@ -2321,56 +2393,67 @@ contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:245:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); ^~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'count_orbitals': -contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1165:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] - fscanf(data->file, " Ene= %f\n", &orbenergy); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1166:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] - fscanf(data->file, " Spin= %s\n", spin); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1167:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] - fscanf(data->file, " Occup= %f\n", &occu); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49: -contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function 'eatline': -contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 1024, fd); - ^~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function 'void* open_cube_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:175:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 1023, cube->fd); // go on to next line - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:181:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 1023, cube->fd); // skip second header line - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:324:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 1023, cube->fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:335:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 1023, cube->fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:337:11: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(cube->fd, "%d", &cube->nsets); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:342:13: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(cube->fd, "%d", &orb); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:347:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 1023, cube->fd); // gobble up rest of line - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'open_molden_read': contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:224:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(data->file, "%d", &natm); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:141:32: warning: function declaration isn't a prototype [-Wstrict-prototypes] - static abinit_binary_header_t *abinit_header_malloc() - ^~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:154:29: warning: function declaration isn't a prototype [-Wstrict-prototypes] - static abinit_plugindata_t *abinit_plugindata_malloc() - ^~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: +contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:437:18: warning: function declaration isn't a prototype [-Wstrict-prototypes] + static qmdata_t* init_qmdata() { + ^~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'have_gamess': +contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1106:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] + char word[3][BUFSIZ]; + ^~~~ +contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_basis_stats': +contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2264:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] + char word[7][BUFSIZ]; + ^~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function 'int read_bgf_timestep(void*, int, molfile_timestep_t*)': +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, bgf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:252:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, bgf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function 'int read_bgf_bonds_aux(void*, int*, int**, int**, float**)': +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:328:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, bgf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:346:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, bgf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:355:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(nextline, LINESIZE, bgf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:419:14: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, bgf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_wavefunction': +contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:3573:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] + char word[6][BUFSIZ]; + ^~~~ +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function 'int read_bgf_structure(void*, int*, molfile_atom_t*)': +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:194:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, bgf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:203:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, bgf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function 'void* open_bgf_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:59:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function 'read_car_structure': +In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: +contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function 'eatline': +contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 1024, fd); + ^~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:29: warning: '%d' directive writing between 1 and 11 bytes into a region of size 8 [-Wformat-overflow=] sprintf(atom->resname, "%d", resid); ^~ @@ -2384,6 +2467,24 @@ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:141:32: warning: function declaration isn't a prototype [-Wstrict-prototypes] + static abinit_binary_header_t *abinit_header_malloc() + ^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:154:29: warning: function declaration isn't a prototype [-Wstrict-prototypes] + static abinit_plugindata_t *abinit_plugindata_malloc() + ^~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function 'open_rst_read': +contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:48:11: warning: variable 'timesteprst' set but not used [-Wunused-but-set-variable] + double timesteprst; + ^~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:67:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(title, 82, fd); + ^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:70:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, 82, fd); + ^~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'DEN_read_volumetric_data': contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:970:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); @@ -2398,23 +2499,40 @@ contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1114:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'abinit_header': +In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:39: +contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] + static vasp_plugindata_t *vasp_plugindata_malloc() + ^~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1511:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] fread(skip, 1, 8, fp); ^~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function 'read_vaspoutcar_timestep': +contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:239:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:242:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function 'read_vaspoutcar_structure': +contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:204:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function 'open_vaspoutcar_read': +contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:87:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30: +contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function 'int mdio_readline(md_file*, char*, int, int)': +contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:426:7: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(buf, n, mf->f); + ~~~~~^~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'GEO_read_next_timestep': contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:619:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(data->file, "%*s %f %f %f", &x, &y, &z); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: -contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:437:18: warning: function declaration isn't a prototype [-Wstrict-prototypes] - static qmdata_t* init_qmdata() { - ^~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'have_gamess': -contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1106:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] - char word[3][BUFSIZ]; - ^~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function 'void binary_get_element(PlyFile*, char*)': contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1629:13: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] @@ -2448,59 +2566,6 @@ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2099:13: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread (ptr, 8, 1, fp); ~~~~~~^~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_basis_stats': -contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2264:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] - char word[7][BUFSIZ]; - ^~~~ -contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_wavefunction': -contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:3573:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] - char word[6][BUFSIZ]; - ^~~~ -In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: -contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function 'eatline': -contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 1024, fd); - ^~~~~~~~~~~~~~~~~~~~~~~~ -In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:39: -contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] - static vasp_plugindata_t *vasp_plugindata_malloc() - ^~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function 'read_vaspoutcar_timestep': -contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:239:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:242:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function 'read_vaspoutcar_structure': -contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:204:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function 'open_vaspoutcar_read': -contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:87:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function 'open_rst_read': -contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:48:11: warning: variable 'timesteprst' set but not used [-Wunused-but-set-variable] - double timesteprst; - ^~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:67:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(title, 82, fd); - ^~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:70:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, 82, fd); - ^~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'void* open_uhbd_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:102:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(&headersize, sizeof(int), 1, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function 'void* open_ccp4_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:304:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(symData, 81, fd); - ~~~~~^~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp: In function 'int read_parm7_structure(void*, int*, molfile_atom_t*)': contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:78:14: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf, 85, file); @@ -2579,13 +2644,18 @@ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:97:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] fscanf(file, "%s\n", buf); ~~~~~~^~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function 'read_dcdstep': contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:546:16: warning: variable 'readlen' set but not used [-Wunused-but-set-variable] fio_size_t readlen; /* number of bytes actually read */ ^~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function 'void* open_ccp4_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:304:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(symData, 81, fd); + ~~~~~^~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:41: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] static vasp_plugindata_t *vasp_plugindata_malloc() @@ -2617,53 +2687,29 @@ contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:131:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c: In function 'open_binpos_read': -contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:64:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] - fread(magicchar,sizeof(char),4,fd); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:72:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] - fread(&igarb,sizeof(int),1,fd); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:39: +contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'void* open_uhbd_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:102:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(&headersize, sizeof(int), 1, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:46: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] static vasp_plugindata_t *vasp_plugindata_malloc() ^~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function 'read_vasp5xdatcar_timestep': -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:224:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function 'read_vasp5xdatcar_structure': -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:174:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 2; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:180:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:189:26: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 3; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:194:4: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:204:26: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 8; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function 'open_vasp5xdatcar_read': -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:69:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:72:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:77:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function 'read_vaspxml_structure': +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:139:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:144:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function 'open_vaspxml_read': +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:86:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:92:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon In file included from contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:24: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h: In member function 'int {anonymous}::ReadPARM::readparm(FILE*)': contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:435:17: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] @@ -2723,82 +2769,15 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~~~ &prm->Xcap, &prm->Ycap, &prm->Zcap); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_basis_options': -contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1398:41: warning: '%s' directive writing up to 8191 bytes into a region of size 8190 [-Wformat-overflow=] - sprintf(data->basis_string, "%d-%s%sG%s", - ^~ - ngauss, (data->gbasis+1), diffuse, - ~~~~~~~ -In file included from /usr/include/stdio.h:873, - from contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:27, - from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output 4 or more bytes (assuming 16386) into a destination of size 8192 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1394:43: warning: '%s' directive writing up to 8191 bytes into a region of size between 8176 and 8186 [-Wformat-overflow=] - sprintf(data->basis_string, "STO-%dG%s%s", - ^~ - ngauss, diffuse, polarization); - ~~~~~~~ -In file included from /usr/include/stdio.h:873, - from contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:27, - from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 7 and 16399 bytes into a destination of size 8192 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function 'int read_spider_data(void*, int, float*, float*)': -contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:286:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(datablock, total * sizeof(float), 1, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:39: -contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] - static vasp_plugindata_t *vasp_plugindata_malloc() - ^~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_timestep': -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:283:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_structure': -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:228:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 4; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:233:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:237:32: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 2; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:252:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 10 - data->version; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'open_vaspxdatcar_read': -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:89:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:92:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:97:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:111:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:121:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:39: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] static vasp_plugindata_t *vasp_plugindata_malloc() ^~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function 'write_vaspposcar_timestep': contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:360:40: warning: argument to 'sizeof' in 'strncpy' call is the same expression as the source; did you mean to use the size of the destination? [-Wsizeof-pointer-memaccess] strncpy(tmptype, atom->type, sizeof(atom->type)); @@ -2839,6 +2818,62 @@ contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:87:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c: In function 'open_binpos_read': +contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:64:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] + fread(magicchar,sizeof(char),4,fd); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:72:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] + fread(&igarb,sizeof(int),1,fd); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function 'int read_spider_data(void*, int, float*, float*)': +contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:286:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(datablock, total * sizeof(float), 1, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +In file included from contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:39: +contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] + static vasp_plugindata_t *vasp_plugindata_malloc() + ^~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function 'read_vasp5xdatcar_timestep': +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:224:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function 'read_vasp5xdatcar_structure': +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:174:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 2; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:180:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:189:26: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 3; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:194:4: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:204:26: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 8; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function 'open_vasp5xdatcar_read': +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:69:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:72:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:77:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function 'vtf_read_bonds': +contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:147:48: warning: '%s' directive argument is null [-Wformat-overflow=] + sprintf(message, "vtfplugin:%d: error: %s: \"%s\"\n", + ^~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Crystal.cpp -o build/temp.linux-amd64-2.7/layer0/Crystal.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function 'int read_xbgf_timestep(void*, int, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:288:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, bgf->file); @@ -2870,30 +2905,24 @@ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:72:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); ~~~~~^~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Crystal.cpp -o build/temp.linux-amd64-2.7/layer0/Crystal.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Feedback.cpp -o build/temp.linux-amd64-2.7/layer0/Feedback.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:46: -contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] - static vasp_plugindata_t *vasp_plugindata_malloc() - ^~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function 'read_vaspxml_structure': -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:139:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:144:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function 'open_vaspxml_read': -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:86:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:92:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/GraphicsUtil.cpp -o build/temp.linux-amd64-2.7/layer0/GraphicsUtil.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Matrix.cpp -o build/temp.linux-amd64-2.7/layer0/Matrix.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_config_structure': +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:292:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + if (NULL == fgets(fbuffer, 1024, data->file)) + ^~ +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:295:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + if (NULL == fgets(fbuffer, 1024, data->file)) + ^~ +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_config_timestep': +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:669:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(fbuffer, 1024, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_timestep': +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:554:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(fbuffer, 1024, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)': contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:91:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 80, infile); @@ -2925,50 +2954,50 @@ contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:256:15: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 80, infile); ~~~~~^~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_config_structure': -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:292:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - if (NULL == fgets(fbuffer, 1024, data->file)) - ^~ -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:295:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - if (NULL == fgets(fbuffer, 1024, data->file)) - ^~ -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_config_timestep': -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:669:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(fbuffer, 1024, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_timestep': -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:554:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(fbuffer, 1024, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/GraphicsUtil.cpp -o build/temp.linux-amd64-2.7/layer0/GraphicsUtil.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_basis_options': +contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1398:41: warning: '%s' directive writing up to 8191 bytes into a region of size 8190 [-Wformat-overflow=] + sprintf(data->basis_string, "%d-%s%sG%s", + ^~ + ngauss, (data->gbasis+1), diffuse, + ~~~~~~~ +In file included from /usr/include/stdio.h:873, + from contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:27, + from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output 4 or more bytes (assuming 16386) into a destination of size 8192 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1394:43: warning: '%s' directive writing up to 8191 bytes into a region of size between 8176 and 8186 [-Wformat-overflow=] + sprintf(data->basis_string, "STO-%dG%s%s", + ^~ + ngauss, diffuse, polarization); + ~~~~~~~ +In file included from /usr/include/stdio.h:873, + from contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:27, + from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 7 and 16399 bytes into a destination of size 8192 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/inthash.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/inthash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Matrix.cpp -o build/temp.linux-amd64-2.7/layer0/Matrix.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function 'get_atom_radius': -contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:16: warning: variable 'type' set but not used [-Wunused-but-set-variable] - char *name, *type; - ^~~~ -contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:9: warning: variable 'name' set but not used [-Wunused-but-set-variable] - char *name, *type; - ^~~~ +contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function 'int read_vtk_data_ex(void*, molfile_volumetric_readwrite_t*)': +contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:371:15: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function 'int read_vtk_data(void*, int, float*, float*)': +contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:306:15: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Parse.cpp -o build/temp.linux-amd64-2.7/layer0/Parse.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/ShaderPrg.cpp -o build/temp.linux-amd64-2.7/layer0/ShaderPrg.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Tracker.cpp -o build/temp.linux-amd64-2.7/layer0/Tracker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Vector.cpp -o build/temp.linux-amd64-2.7/layer0/Vector.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Field.cpp -o build/temp.linux-amd64-2.7/layer0/Field.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function 'vtf_read_bonds': -contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:147:48: warning: '%s' directive argument is null [-Wformat-overflow=] - sprintf(message, "vtfplugin:%d: error: %s: \"%s\"\n", - ^~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Pixmap.cpp -o build/temp.linux-amd64-2.7/layer0/Pixmap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/ButMode.cpp -o build/temp.linux-amd64-2.7/layer1/ButMode.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function 'void eatline(FILE*)': contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:238:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(readbuf, 1024, fd); // go on to next line @@ -2998,17 +3027,25 @@ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:508:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(readbuf, 256, xsf->fd); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Isosurf.cpp -o build/temp.linux-amd64-2.7/layer0/Isosurf.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Field.cpp -o build/temp.linux-amd64-2.7/layer0/Field.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Pixmap.cpp -o build/temp.linux-amd64-2.7/layer0/Pixmap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function 'get_atom_radius': +contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:16: warning: variable 'type' set but not used [-Wunused-but-set-variable] + char *name, *type; + ^~~~ +contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:9: warning: variable 'name' set but not used [-Wunused-but-set-variable] + char *name, *type; + ^~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Triangle.cpp -o build/temp.linux-amd64-2.7/layer0/Triangle.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function 'int read_vtk_data_ex(void*, molfile_volumetric_readwrite_t*)': -contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:371:15: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function 'int read_vtk_data(void*, int, float*, float*)': -contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:306:15: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/ButMode.cpp -o build/temp.linux-amd64-2.7/layer1/ButMode.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Color.cpp -o build/temp.linux-amd64-2.7/layer1/Color.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Isosurf.cpp -o build/temp.linux-amd64-2.7/layer0/Isosurf.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Block.cpp -o build/temp.linux-amd64-2.7/layer0/Block.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'std::__cxx11::string framefile(const string&, size_t, size_t, int, int)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:675:22: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] sprintf(answer, "%03x/", d1); @@ -3033,11 +3070,9 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Color.cpp -o build/temp.linux-amd64-2.7/layer1/Color.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/inthash.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/inthash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Queue.cpp -o build/temp.linux-amd64-2.7/layer0/Queue.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontGLUT.cpp -o build/temp.linux-amd64-2.7/layer1/FontGLUT.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/ShaderMgr.cpp -o build/temp.linux-amd64-2.7/layer0/ShaderMgr.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'void DDmkdir(const string&, mode_t, int, int)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:15: warning: '%03x' directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=] sprintf(sub, "%03x/", i); @@ -3063,8 +3098,11 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/ShaderMgr.cpp -o build/temp.linux-amd64-2.7/layer0/ShaderMgr.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontGLUTHel12.cpp -o build/temp.linux-amd64-2.7/layer1/FontGLUTHel12.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Block.cpp -o build/temp.linux-amd64-2.7/layer0/Block.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontGLUTHel18.cpp -o build/temp.linux-amd64-2.7/layer1/FontGLUTHel18.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Debug.cpp -o build/temp.linux-amd64-2.7/layer0/Debug.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function 'void line3(FILE*, GRASSP*)': contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:186:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(line3, 1, 80, infile); @@ -3235,36 +3273,37 @@ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:398:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(properties, sizeof(float), 3 * nvert, infile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Debug.cpp -o build/temp.linux-amd64-2.7/layer0/Debug.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Deferred.cpp -o build/temp.linux-amd64-2.7/layer0/Deferred.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Err.cpp -o build/temp.linux-amd64-2.7/layer0/Err.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontType.cpp -o build/temp.linux-amd64-2.7/layer1/FontType.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/File.cpp -o build/temp.linux-amd64-2.7/layer0/File.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Word.cpp -o build/temp.linux-amd64-2.7/layer0/Word.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontGLUTHel12.cpp -o build/temp.linux-amd64-2.7/layer1/FontGLUTHel12.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/CGO.cpp -o build/temp.linux-amd64-2.7/layer1/CGO.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Ortho.cpp -o build/temp.linux-amd64-2.7/layer1/Ortho.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/GenericBuffer.cpp -o build/temp.linux-amd64-2.7/layer0/GenericBuffer.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontGLUTHel18.cpp -o build/temp.linux-amd64-2.7/layer1/FontGLUTHel18.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontType.cpp -o build/temp.linux-amd64-2.7/layer1/FontType.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Sphere.cpp -o build/temp.linux-amd64-2.7/layer0/Sphere.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Word.cpp -o build/temp.linux-amd64-2.7/layer0/Word.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/PyMOLObject.cpp -o build/temp.linux-amd64-2.7/layer1/PyMOLObject.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/CGO.cpp -o build/temp.linux-amd64-2.7/layer1/CGO.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Sphere.cpp -o build/temp.linux-amd64-2.7/layer0/Sphere.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/ScenePicking.cpp -o build/temp.linux-amd64-2.7/layer1/ScenePicking.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontGLUT8x13.cpp -o build/temp.linux-amd64-2.7/layer1/FontGLUT8x13.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontGLUT9x15.cpp -o build/temp.linux-amd64-2.7/layer1/FontGLUT9x15.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/FontGLUTHel10.cpp -o build/temp.linux-amd64-2.7/layer1/FontGLUTHel10.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/os_gl.cpp -o build/temp.linux-amd64-2.7/layer0/os_gl.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Tetsurf.cpp -o build/temp.linux-amd64-2.7/layer0/Tetsurf.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/ScenePicking.cpp -o build/temp.linux-amd64-2.7/layer1/ScenePicking.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Seq.cpp -o build/temp.linux-amd64-2.7/layer1/Seq.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Basis.cpp -o build/temp.linux-amd64-2.7/layer1/Basis.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Text.cpp -o build/temp.linux-amd64-2.7/layer1/Text.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Movie.cpp -o build/temp.linux-amd64-2.7/layer1/Movie.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/SceneRay.cpp -o build/temp.linux-amd64-2.7/layer1/SceneRay.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Control.cpp -o build/temp.linux-amd64-2.7/layer1/Control.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Util.cpp -o build/temp.linux-amd64-2.7/layer0/Util.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Map.cpp -o build/temp.linux-amd64-2.7/layer0/Map.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/P.cpp -o build/temp.linux-amd64-2.7/layer1/P.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Util2.cpp -o build/temp.linux-amd64-2.7/layer0/Util2.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/AssemblyHelpers.cpp -o build/temp.linux-amd64-2.7/layer2/AssemblyHelpers.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Ray.cpp -o build/temp.linux-amd64-2.7/layer1/Ray.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/CifFile.cpp -o build/temp.linux-amd64-2.7/layer2/CifFile.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function 'int read_edm_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:240:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(readbuf, 13, edm->fd); @@ -3273,45 +3312,6 @@ contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:44:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(readbuf, 1024, fd); // go on to next line ~~~~~^~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Util2.cpp -o build/temp.linux-amd64-2.7/layer0/Util2.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/AssemblyHelpers.cpp -o build/temp.linux-amd64-2.7/layer2/AssemblyHelpers.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Ray.cpp -o build/temp.linux-amd64-2.7/layer1/Ray.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/SceneRay.cpp -o build/temp.linux-amd64-2.7/layer1/SceneRay.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/CifFile.cpp -o build/temp.linux-amd64-2.7/layer2/CifFile.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'int read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)': -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:278:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:297:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:319:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:357:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'int read_mdf_structure(void*, int*, molfile_atom_t*)': -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:223:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:241:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'void* open_mdf_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:164:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:176:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:183:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Setting.cpp -o build/temp.linux-amd64-2.7/layer1/Setting.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/GadgetSet.cpp -o build/temp.linux-amd64-2.7/layer2/GadgetSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer1/Movie.cpp: In function 'int MovieRelease(Block*, int, int, int, int)': layer1/Movie.cpp:1755:24: warning: '%s' directive writing up to 1023 bytes into a region of size between 972 and 992 [-Wformat-overflow=] sprintf(buffer,"cmd.mview('clear',first=%d,last=%d%s)", @@ -3375,11 +3375,8 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/MemoryCache.cpp -o build/temp.linux-amd64-2.7/layer0/MemoryCache.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/MemoryDebug.cpp -o build/temp.linux-amd64-2.7/layer0/MemoryDebug.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/MyPNG.cpp -o build/temp.linux-amd64-2.7/layer0/MyPNG.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Texture.cpp -o build/temp.linux-amd64-2.7/layer0/Texture.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Match.cpp -o build/temp.linux-amd64-2.7/layer0/Match.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Setting.cpp -o build/temp.linux-amd64-2.7/layer1/Setting.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/GadgetSet.cpp -o build/temp.linux-amd64-2.7/layer2/GadgetSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer1/Movie.cpp: In function 'void MovieModalPNG(PyMOLGlobals*, CMovie*, CMovieModal*)': layer1/Movie.cpp:803:11: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 221 [-Wformat-truncation=] " MoviePNG-Error: unable to write '%s'\n", M->fname ENDFB(G); @@ -3393,14 +3390,47 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Extrude.cpp -o build/temp.linux-amd64-2.7/layer1/Extrude.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/AtomInfo.cpp -o build/temp.linux-amd64-2.7/layer2/AtomInfo.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Map.cpp -o build/temp.linux-amd64-2.7/layer0/Map.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/SceneRender.cpp -o build/temp.linux-amd64-2.7/layer1/SceneRender.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/Mol2Typing.cpp -o build/temp.linux-amd64-2.7/layer2/Mol2Typing.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/CifMoleculeReader.cpp -o build/temp.linux-amd64-2.7/layer2/CifMoleculeReader.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-amd64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'int read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)': +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:278:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:297:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:319:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:357:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'int read_mdf_structure(void*, int*, molfile_atom_t*)': +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:223:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:241:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'void* open_mdf_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:164:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:176:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:183:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Texture.cpp -o build/temp.linux-amd64-2.7/layer0/Texture.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Extrude.cpp -o build/temp.linux-amd64-2.7/layer1/Extrude.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectCallback.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectCallback.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectGroup.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectGroup.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/CifMoleculeReader.cpp -o build/temp.linux-amd64-2.7/layer2/CifMoleculeReader.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/PConv.cpp -o build/temp.linux-amd64-2.7/layer1/PConv.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/SceneRender.cpp -o build/temp.linux-amd64-2.7/layer1/SceneRender.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/AtomInfo.cpp -o build/temp.linux-amd64-2.7/layer2/AtomInfo.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer1/PConv.cpp:38: warning: "PyString_Check" redefined #define PyString_Check(o) (PyBytes_CheckExact(o) || PyUnicode_Check(o)) @@ -3410,17 +3440,25 @@ /usr/include/python2.7/stringobject.h:58: note: this is the location of the previous definition #define PyString_Check(op) \ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectMolecule2.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectMolecule2.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/MemoryCache.cpp -o build/temp.linux-amd64-2.7/layer0/MemoryCache.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/MemoryDebug.cpp -o build/temp.linux-amd64-2.7/layer0/MemoryDebug.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/MyPNG.cpp -o build/temp.linux-amd64-2.7/layer0/MyPNG.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/HydrogenAdder.cpp -o build/temp.linux-amd64-2.7/layer2/HydrogenAdder.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/MolV3000.cpp -o build/temp.linux-amd64-2.7/layer2/MolV3000.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectMap.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectMap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer0/Match.cpp -o build/temp.linux-amd64-2.7/layer0/Match.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectGroup.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectGroup.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectMolecule2.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectMolecule2.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Pop.cpp -o build/temp.linux-amd64-2.7/layer1/Pop.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepAngle.cpp -o build/temp.linux-amd64-2.7/layer2/RepAngle.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectDist.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectDist.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Pop.cpp -o build/temp.linux-amd64-2.7/layer1/Pop.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/AtomInfoHistory.cpp -o build/temp.linux-amd64-2.7/layer2/AtomInfoHistory.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Font.cpp -o build/temp.linux-amd64-2.7/layer1/Font.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectAlignment.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectAlignment.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepDistDash.cpp -o build/temp.linux-amd64-2.7/layer2/RepDistDash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/MmodTyping.cpp -o build/temp.linux-amd64-2.7/layer2/MmodTyping.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepLabel.cpp -o build/temp.linux-amd64-2.7/layer2/RepLabel.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectAlignment.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectAlignment.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectMap.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectMap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/ScrollBar.cpp -o build/temp.linux-amd64-2.7/layer1/ScrollBar.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/AtomInfoHistory.cpp -o build/temp.linux-amd64-2.7/layer2/AtomInfoHistory.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/MmtfMoleculeReader.cpp -o build/temp.linux-amd64-2.7/layer2/MmtfMoleculeReader.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer1/Ray.cpp: In function 'void RayRenderVRML2(CRay*, int, int, char**, float, float, float, float, float)': layer1/Ray.cpp:1549:19: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 914 [-Wformat-overflow=] "Transform {\n" @@ -3449,14 +3487,18 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/MmodTyping.cpp -o build/temp.linux-amd64-2.7/layer2/MmodTyping.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepLabel.cpp -o build/temp.linux-amd64-2.7/layer2/RepLabel.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/ScrollBar.cpp -o build/temp.linux-amd64-2.7/layer1/ScrollBar.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepCartoon.cpp -o build/temp.linux-amd64-2.7/layer2/RepCartoon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/MmtfMoleculeReader.cpp -o build/temp.linux-amd64-2.7/layer2/MmtfMoleculeReader.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Font.cpp -o build/temp.linux-amd64-2.7/layer1/Font.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectGadget.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectGadget.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepDistLabel.cpp -o build/temp.linux-amd64-2.7/layer2/RepDistLabel.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepRibbon.cpp -o build/temp.linux-amd64-2.7/layer2/RepRibbon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepSurface.cpp -o build/temp.linux-amd64-2.7/layer2/RepSurface.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepMesh.cpp -o build/temp.linux-amd64-2.7/layer2/RepMesh.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectCGO.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectCGO.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepCartoon.cpp -o build/temp.linux-amd64-2.7/layer2/RepCartoon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/SideChainHelper.cpp -o build/temp.linux-amd64-2.7/layer2/SideChainHelper.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepDistLabel.cpp -o build/temp.linux-amd64-2.7/layer2/RepDistLabel.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/TypeFace.cpp -o build/temp.linux-amd64-2.7/layer1/TypeFace.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectGadgetRamp.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectGadgetRamp.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/View.cpp -o build/temp.linux-amd64-2.7/layer1/View.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/BondTypeHistory.cpp -o build/temp.linux-amd64-2.7/layer2/BondTypeHistory.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer2/ObjectMap.cpp: In function 'int ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int)': layer2/ObjectMap.cpp:4311:5: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=] @@ -3483,21 +3525,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepSurface.cpp -o build/temp.linux-amd64-2.7/layer2/RepSurface.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepMesh.cpp -o build/temp.linux-amd64-2.7/layer2/RepMesh.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectMolecule2.cpp: In function 'int ObjectMoleculeAddPseudoatom(ObjectMolecule*, int, const char*, const char*, const char*, const char*, const char*, const char*, float, int, float, float, const char*, float*, int, int, int, int)': -layer2/ObjectMolecule2.cpp:308:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=] - " ObjMol: created %s/%s/%s/%s`%d%c/%s\n", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer2/ObjectMolecule2.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 26 or more bytes (assuming 281) into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/VFont.cpp -o build/temp.linux-amd64-2.7/layer2/VFont.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer2/ObjectMap.cpp: In function 'ObjectMap* ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, const char*, int, int, int, int)': layer2/ObjectMap.cpp:2983:7: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=] " PHIStrToMap: %s\n", cc ENDFB(I->Obj.G); @@ -3547,65 +3575,32 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectCGO.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectCGO.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectGadgetRamp.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectGadgetRamp.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/SideChainHelper.cpp -o build/temp.linux-amd64-2.7/layer2/SideChainHelper.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepDot.cpp -o build/temp.linux-amd64-2.7/layer2/RepDot.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepSphere.cpp -o build/temp.linux-amd64-2.7/layer2/RepSphere.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectMesh.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectMesh.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/TypeFace.cpp -o build/temp.linux-amd64-2.7/layer1/TypeFace.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Rep.cpp -o build/temp.linux-amd64-2.7/layer1/Rep.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/VFont.cpp -o build/temp.linux-amd64-2.7/layer2/VFont.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/View.cpp -o build/temp.linux-amd64-2.7/layer1/View.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/CoordSet.cpp -o build/temp.linux-amd64-2.7/layer2/CoordSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/Editor.cpp -o build/temp.linux-amd64-2.7/layer3/Editor.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepNonbonded.cpp -o build/temp.linux-amd64-2.7/layer2/RepNonbonded.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/MovieScene.cpp -o build/temp.linux-amd64-2.7/layer3/MovieScene.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectSlice.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectSlice.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectMesh.cpp: In function 'void ObjectMeshDump(ObjectMesh*, const char*, int)': -layer2/ObjectMesh.cpp:370:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=] - " ObjectMeshDump: %s written to %s\n", I->Obj.Name, fname ENDFB(I->Obj.G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer2/ObjectMesh.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 31 or more bytes (assuming 286) into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepEllipsoid.cpp -o build/temp.linux-amd64-2.7/layer2/RepEllipsoid.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectMesh.cpp: In function 'void ObjectMeshUpdate(ObjectMesh*)': -layer2/ObjectMesh.cpp:550:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 226 [-Wformat-truncation=] - "ObjectMeshUpdate-Error: map '%s' has been deleted.\n", ms->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer2/ObjectMesh.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 50 and 305 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectMesh.cpp:584:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 232 [-Wformat-truncation=] - " ObjectMesh: updating \"%s\".\n", I->Obj.Name ENDFB(G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Shaker.cpp -o build/temp.linux-amd64-2.7/layer1/Shaker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepDot.cpp -o build/temp.linux-amd64-2.7/layer2/RepDot.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectMolecule2.cpp: In function 'int ObjectMoleculeAddPseudoatom(ObjectMolecule*, int, const char*, const char*, const char*, const char*, const char*, const char*, float, int, float, float, const char*, float*, int, int, int, int)': +layer2/ObjectMolecule2.cpp:308:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=] + " ObjMol: created %s/%s/%s/%s`%d%c/%s\n", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python2.7/Python.h:33, from layer0/os_python.h:34, - from layer2/ObjectMesh.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 27 and 282 bytes into a destination of size 255 + from layer2/ObjectMolecule2.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 26 or more bytes (assuming 281) into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Scene.cpp -o build/temp.linux-amd64-2.7/layer1/Scene.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepSphereGenerate.cpp -o build/temp.linux-amd64-2.7/layer2/RepSphereGenerate.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/Editor.cpp -o build/temp.linux-amd64-2.7/layer3/Editor.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/MovieScene.cpp -o build/temp.linux-amd64-2.7/layer3/MovieScene.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectMesh.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectMesh.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/AtomIterators.cpp -o build/temp.linux-amd64-2.7/layer3/AtomIterators.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepCylBond.cpp -o build/temp.linux-amd64-2.7/layer2/RepCylBond.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectMolecule.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectMolecule.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepNonbonded.cpp -o build/temp.linux-amd64-2.7/layer2/RepNonbonded.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Rep.cpp -o build/temp.linux-amd64-2.7/layer1/Rep.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer4/Cmd.cpp -o build/temp.linux-amd64-2.7/layer4/Cmd.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/CoordSet.cpp -o build/temp.linux-amd64-2.7/layer2/CoordSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Symmetry.cpp -o build/temp.linux-amd64-2.7/layer1/Symmetry.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/CifDataValueFormatter.cpp -o build/temp.linux-amd64-2.7/layer3/CifDataValueFormatter.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Editor.cpp: In function 'int EditorLogState(PyMOLGlobals*, int)': layer3/Editor.cpp:588:23: warning: '%s' directive writing up to 1023 bytes into a region of size 1015 [-Wformat-overflow=] sprintf(buffer, "cmd.edit(%s,%s,%s,%s,pkresi=%d,pkbond=%d)", @@ -3623,6 +3618,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Wizard.cpp -o build/temp.linux-amd64-2.7/layer1/Wizard.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Editor.cpp: In function 'void EditorHFill(PyMOLGlobals*, int)': layer3/Editor.cpp:1027:20: warning: '%s' directive writing up to 1023 bytes into a region of size 1012 [-Wformat-overflow=] sprintf(buffer, "((neighbor (%s)) and hydro and not (%s))", @@ -3638,10 +3634,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/CoordSet.cpp: In member function 'void CoordSet::update(int)': -layer2/CoordSet.cpp:1211:39: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 223 [-Wformat-truncation=] - PRINTFB(G, FB_CoordSet, FB_Blather) " CoordSetUpdate-Entered: object %s state %d cset %p\n", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Editor.cpp: In function 'void EditorPrepareDrag(PyMOLGlobals*, CObject*, int, int, int, int)': layer3/Editor.cpp:1903:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=] " Editor: grabbing (%s).", name ENDFB(G); @@ -3655,6 +3647,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer5/PyMOL.cpp -o build/temp.linux-amd64-2.7/layer5/PyMOL.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Editor.cpp: In function 'void EditorDefineExtraPks(PyMOLGlobals*)': layer3/Editor.cpp:338:21: warning: '%s' directive writing up to 255 bytes into a region of size 249 [-Wformat-overflow=] sprintf(buffer, "(byres %s)", name); @@ -3692,8 +3685,111 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Wizard.cpp -o build/temp.linux-amd64-2.7/layer1/Wizard.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepSphereGenerate.cpp -o build/temp.linux-amd64-2.7/layer2/RepSphereGenerate.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepEllipsoid.cpp -o build/temp.linux-amd64-2.7/layer2/RepEllipsoid.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Scene.cpp -o build/temp.linux-amd64-2.7/layer1/Scene.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectMesh.cpp: In function 'void ObjectMeshDump(ObjectMesh*, const char*, int)': +layer2/ObjectMesh.cpp:370:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=] + " ObjectMeshDump: %s written to %s\n", I->Obj.Name, fname ENDFB(I->Obj.G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer2/ObjectMesh.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 31 or more bytes (assuming 286) into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/Executive.cpp -o build/temp.linux-amd64-2.7/layer3/Executive.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectMesh.cpp: In function 'void ObjectMeshUpdate(ObjectMesh*)': +layer2/ObjectMesh.cpp:550:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 226 [-Wformat-truncation=] + "ObjectMeshUpdate-Error: map '%s' has been deleted.\n", ms->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer2/ObjectMesh.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 50 and 305 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectMesh.cpp:584:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 232 [-Wformat-truncation=] + " ObjectMesh: updating \"%s\".\n", I->Obj.Name ENDFB(G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer2/ObjectMesh.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 27 and 282 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVContext.cpp -o build/temp.linux-amd64-2.7/ov/src/OVContext.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVHeap.cpp -o build/temp.linux-amd64-2.7/ov/src/OVHeap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepWireBond.cpp -o build/temp.linux-amd64-2.7/layer2/RepWireBond.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectMolecule.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectMolecule.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVHeapArray.cpp -o build/temp.linux-amd64-2.7/ov/src/OVHeapArray.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer4/Cmd.cpp: In function 'PyObject* CmdLoadTraj(PyObject*, PyObject*)': +layer4/Cmd.cpp:7297:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] + "%s", buf ENDFB(G); + ^~~~ ~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer4/Cmd.cpp:45: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin_snprintf' output between 1 and 1024 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectSlice.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectSlice.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVLexicon.cpp -o build/temp.linux-amd64-2.7/ov/src/OVLexicon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer4/Cmd.cpp: In function 'PyObject* CmdLoadObject(PyObject*, PyObject*)': +layer4/Cmd.cpp:7060:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] + "%s", buf ENDFB(G); + ^~~~ ~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer4/Cmd.cpp:45: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin_snprintf' output between 1 and 1024 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVOneToAny.cpp -o build/temp.linux-amd64-2.7/ov/src/OVOneToAny.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/CoordSet.cpp: In member function 'void CoordSet::update(int)': +layer2/CoordSet.cpp:1211:39: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 223 [-Wformat-truncation=] + PRINTFB(G, FB_CoordSet, FB_Blather) " CoordSetUpdate-Entered: object %s state %d cset %p\n", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepCylBond.cpp -o build/temp.linux-amd64-2.7/layer2/RepCylBond.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVOneToOne.cpp -o build/temp.linux-amd64-2.7/ov/src/OVOneToOne.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepNonbondedSphere.cpp -o build/temp.linux-amd64-2.7/layer2/RepNonbondedSphere.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepSphereImmediate.cpp -o build/temp.linux-amd64-2.7/layer2/RepSphereImmediate.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/DistSet.cpp -o build/temp.linux-amd64-2.7/layer2/DistSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer5/PyMOL.cpp: In function 'char* PyMOL_GetClickString(CPyMOL*, int)': +layer5/PyMOL.cpp:2846:19: warning: '%s' directive writing up to 255 bytes into a region of size between 137 and 914 [-Wformat-overflow=] + "type=object:molecule\nobject=%s\nindex=%d\nrank=%d\nid=%d\nsegi=%s\nchain=%s\nresn=%s\nresi=%d%s\nname=%s\nalt=%s\nclick=%s\nmod_keys=%s\nx=%d\ny=%d\n%s", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer5/PyMOL.cpp:2856:70: + ai->alt, butstr, modstr, I->ClickedX, I->ClickedY, posstr); + ~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer5/PyMOL.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output 112 or more bytes (assuming 1144) into a destination of size 1025 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVRandom.cpp -o build/temp.linux-amd64-2.7/ov/src/OVRandom.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/COLLADA.cpp -o build/temp.linux-amd64-2.7/layer1/COLLADA.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/ov_utility.cpp -o build/temp.linux-amd64-2.7/ov/src/ov_utility.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer5/TestPyMOL.cpp -o build/temp.linux-amd64-2.7/layer5/TestPyMOL.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer2/ObjectSlice.cpp: In function 'void ObjectSliceUpdate(ObjectSlice*)': layer2/ObjectSlice.cpp:686:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 225 [-Wformat-truncation=] "ObjectSliceUpdate-Error: map '%s' has been deleted.\n", oss->MapName @@ -3719,14 +3815,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/DistSet.cpp -o build/temp.linux-amd64-2.7/layer2/DistSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/Executive.cpp -o build/temp.linux-amd64-2.7/layer3/Executive.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer4/Cmd.cpp -o build/temp.linux-amd64-2.7/layer4/Cmd.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/CifDataValueFormatter.cpp -o build/temp.linux-amd64-2.7/layer3/CifDataValueFormatter.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepSphereImmediate.cpp -o build/temp.linux-amd64-2.7/layer2/RepSphereImmediate.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer5/PyMOL.cpp -o build/temp.linux-amd64-2.7/layer5/PyMOL.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectSurface.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectSurface.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Shaker.cpp -o build/temp.linux-amd64-2.7/layer1/Shaker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/Sculpt.cpp -o build/temp.linux-amd64-2.7/layer2/Sculpt.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer2/ObjectMolecule.cpp: In function 'const char* findflag(PyMOLGlobals*, const char*, const char*, const char*)': layer2/ObjectMolecule.cpp:1525:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 194 [-Wformat-truncation=] " ObjectMolecule-Error: Unrecognized file format (can't find \"%s\").\n", pat @@ -3765,56 +3854,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVContext.cpp -o build/temp.linux-amd64-2.7/ov/src/OVContext.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVHeap.cpp -o build/temp.linux-amd64-2.7/ov/src/OVHeap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVOneToAny.cpp -o build/temp.linux-amd64-2.7/ov/src/OVOneToAny.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVHeapArray.cpp -o build/temp.linux-amd64-2.7/ov/src/OVHeapArray.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepDihedral.cpp -o build/temp.linux-amd64-2.7/layer2/RepDihedral.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVLexicon.cpp -o build/temp.linux-amd64-2.7/ov/src/OVLexicon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVOneToOne.cpp -o build/temp.linux-amd64-2.7/ov/src/OVOneToOne.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Symmetry.cpp -o build/temp.linux-amd64-2.7/layer1/Symmetry.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/OVRandom.cpp -o build/temp.linux-amd64-2.7/ov/src/OVRandom.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/COLLADA.cpp -o build/temp.linux-amd64-2.7/layer1/COLLADA.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepWireBond.cpp -o build/temp.linux-amd64-2.7/layer2/RepWireBond.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c ov/src/ov_utility.cpp -o build/temp.linux-amd64-2.7/ov/src/ov_utility.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectSurface.cpp: In function 'void ObjectSurfaceDump(ObjectSurface*, const char*, int)': -layer2/ObjectSurface.cpp:293:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=] - " ObjectSurfaceDump: %s written to %s\n", I->Obj.Name, fname ENDFB(I->Obj.G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer2/ObjectSurface.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 34 or more bytes (assuming 289) into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectSurface.cpp: In function 'void ObjectSurfaceUpdate(ObjectSurface*)': -layer2/ObjectSurface.cpp:528:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=] - " ObjectSurface: updating \"%s\".\n", I->Obj.Name ENDFB(I->Obj.G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer2/ObjectSurface.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 30 and 285 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectSurface.cpp:497:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 223 [-Wformat-truncation=] - "ObjectSurfaceUpdate-Error: map '%s' has been deleted.\n", ms->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer2/ObjectSurface.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 53 and 308 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/PlugIOManager.cpp -o build/temp.linux-amd64-2.7/layer3/PlugIOManager.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer1/Scene.cpp: In function 'int SceneClick(Block*, int, int, int, int, double)': layer1/Scene.cpp:4103:22: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] @@ -4016,50 +4055,9 @@ ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sel_mode_kw, buf1); ~~~~~~~~~~~~~~~~~~ -layer5/PyMOL.cpp: In function 'char* PyMOL_GetClickString(CPyMOL*, int)': -layer5/PyMOL.cpp:2846:19: warning: '%s' directive writing up to 255 bytes into a region of size between 137 and 914 [-Wformat-overflow=] - "type=object:molecule\nobject=%s\nindex=%d\nrank=%d\nid=%d\nsegi=%s\nchain=%s\nresn=%s\nresi=%d%s\nname=%s\nalt=%s\nclick=%s\nmod_keys=%s\nx=%d\ny=%d\n%s", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer5/PyMOL.cpp:2856:70: - ai->alt, butstr, modstr, I->ClickedX, I->ClickedY, posstr); - ~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer5/PyMOL.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output 112 or more bytes (assuming 1144) into a destination of size 1025 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectVolume.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectVolume.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer4/Cmd.cpp: In function 'PyObject* CmdLoadTraj(PyObject*, PyObject*)': -layer4/Cmd.cpp:7297:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] - "%s", buf ENDFB(G); - ^~~~ ~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer4/Cmd.cpp:45: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin_snprintf' output between 1 and 1024 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer4/Cmd.cpp: In function 'PyObject* CmdLoadObject(PyObject*, PyObject*)': -layer4/Cmd.cpp:7060:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] - "%s", buf ENDFB(G); - ^~~~ ~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer4/Cmd.cpp:45: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin_snprintf' output between 1 and 1024 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer5/TestPyMOL.cpp -o build/temp.linux-amd64-2.7/layer5/TestPyMOL.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectSurface.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectSurface.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer5/main.cpp -o build/temp.linux-amd64-2.7/layer5/main.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer4/Export.cpp -o build/temp.linux-amd64-2.7/layer4/Export.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'void ExecutiveRemoveAtoms(PyMOLGlobals*, const char*, int)': layer3/Executive.cpp:9655:17: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size between 207 and 217 [-Wformat-truncation=] " Remove: eliminated %d atoms in model \"%s\".\n", @@ -4110,6 +4108,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/RepDihedral.cpp -o build/temp.linux-amd64-2.7/layer2/RepDihedral.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'int ExecutiveSetBondSettingFromString(PyMOLGlobals*, int, const char*, const char*, const char*, int, int, int)': layer3/Executive.cpp:12098:17: warning: '%s' directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] " Setting: %s set for %d bonds in object \"%s\".\n", @@ -4297,6 +4296,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Character.cpp -o build/temp.linux-amd64-2.7/layer1/Character.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'int ExecutiveSetSettingFromString(PyMOLGlobals*, int, const char*, const char*, int, int, int)': layer3/Executive.cpp:12759:21: warning: '%s' directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] " Setting: %s set to %s in %d objects, state %d.\n", @@ -4424,19 +4424,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer3/PlugIOManager.cpp: In function 'CObject* PlugIOManagerLoad(PyMOLGlobals*, CObject**, const char*, int, int, const char*)': -layer3/PlugIOManager.cpp:859:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 200 [-Wformat-truncation=] - " PlugIOManagerLoad: can't load trajectory into object '%s'\n", obj->Name ENDFB(G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer3/PlugIOManager.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 58 and 313 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveUnsetSetting(PyMOLGlobals*, int, const char*, int, int, int)': layer3/Executive.cpp:12998:23: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 215 [-Wformat-truncation=] " Setting: %s unset for %d atoms in object \"%s\".\n", @@ -4475,107 +4462,93 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectVolume.cpp: In function 'ObjectMapState* ObjectVolumeGetMapState(ObjectVolume*)': -layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] - "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer5/main.cpp: In function 'void launch(CPyMOLOptions*, int)': +layer5/main.cpp:1480:31: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] + char *myArgv[8] = {"pymol"}; + ^ +layer3/PlugIOManager.cpp: In function 'CObject* PlugIOManagerLoad(PyMOLGlobals*, CObject**, const char*, int, int, const char*)': +layer3/PlugIOManager.cpp:859:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 200 [-Wformat-truncation=] + " PlugIOManagerLoad: can't load trajectory into object '%s'\n", obj->Name ENDFB(G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python2.7/Python.h:33, from layer0/os_python.h:34, - from layer2/ObjectVolume.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + from layer3/PlugIOManager.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 58 and 313 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectVolume.cpp: In function 'CField* ObjectVolumeGetField(ObjectVolume*)': -layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] - "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer4/Menu.cpp -o build/temp.linux-amd64-2.7/layer4/Menu.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer3/Executive.cpp: In function 'int ExecutiveDrag(Block*, int, int, int)': +layer3/Executive.cpp:16050:42: warning: '%s' directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=] + sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + order_input, (location == -2) ? "upper" : "current"); + ~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python2.7/Python.h:33, from layer0/os_python.h:34, - from layer2/ObjectVolume.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer1/Character.cpp -o build/temp.linux-amd64-2.7/layer1/Character.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/Sculpt.cpp -o build/temp.linux-amd64-2.7/layer2/Sculpt.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectVolume.cpp: In function 'void ObjectVolumeUpdate(ObjectVolume*)': -layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] - "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + from layer3/Executive.cpp:16: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 32 and 1057 bytes into a destination of size 1024 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/Seeker.cpp -o build/temp.linux-amd64-2.7/layer3/Seeker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectSurface.cpp: In function 'void ObjectSurfaceDump(ObjectSurface*, const char*, int)': +layer2/ObjectSurface.cpp:293:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=] + " ObjectSurfaceDump: %s written to %s\n", I->Obj.Name, fname ENDFB(I->Obj.G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python2.7/Python.h:33, from layer0/os_python.h:34, - from layer2/ObjectVolume.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + from layer2/ObjectSurface.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 34 or more bytes (assuming 289) into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/Seeker.cpp -o build/temp.linux-amd64-2.7/layer3/Seeker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectMolecule.cpp: In function 'void ObjectMoleculeUpdate(ObjectMolecule*)': -layer2/ObjectMolecule.cpp:11293:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size between 181 and 191 [-Wformat-truncation=] - " ObjectMolecule-DEBUG: updating representations for state %d of \"%s\".\n", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c modules/cealign/src/ccealignmodule.cpp -o build/temp.linux-amd64-2.7/modules/cealign/src/ccealignmodule.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectSurface.cpp: In function 'void ObjectSurfaceUpdate(ObjectSurface*)': +layer2/ObjectSurface.cpp:528:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=] + " ObjectSurface: updating \"%s\".\n", I->Obj.Name ENDFB(I->Obj.G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python2.7/Python.h:33, from layer0/os_python.h:34, - from layer2/ObjectMolecule.cpp:16: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 68 and 333 bytes into a destination of size 255 + from layer2/ObjectSurface.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 30 and 285 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer5/main.cpp -o build/temp.linux-amd64-2.7/layer5/main.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectVolume.cpp: In function 'void ObjectVolumeRender(ObjectVolume*, RenderInfo*)': -layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] - "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectSurface.cpp:497:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 223 [-Wformat-truncation=] + "ObjectSurfaceUpdate-Error: map '%s' has been deleted.\n", ms->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python2.7/Python.h:33, from layer0/os_python.h:34, - from layer2/ObjectVolume.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + from layer2/ObjectSurface.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 53 and 308 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectMolecule.cpp: In function 'int ObjectMoleculeMoveAtom(ObjectMolecule*, int, int, float*, int, int)': -layer2/ObjectMolecule.cpp:11416:21: warning: '%s' directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=] - sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - buffer, v[0], v[1], v[2], state + 1, mode, 0); - ~~~~~~ -layer2/ObjectMolecule.cpp:11416:21: note: directive argument in the range [-2147483647, 2147483647] +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/ObjectVolume.cpp -o build/temp.linux-amd64-2.7/layer2/ObjectVolume.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectMolecule.cpp: In function 'void ObjectMoleculeUpdate(ObjectMolecule*)': +layer2/ObjectMolecule.cpp:11293:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size between 181 and 191 [-Wformat-truncation=] + " ObjectMolecule-DEBUG: updating representations for state %d of \"%s\".\n", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python2.7/Python.h:33, from layer0/os_python.h:34, from layer2/ObjectMolecule.cpp:16: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 78 and 2036 bytes into a destination of size 1024 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer3/Executive.cpp: In function 'int ExecutiveDrag(Block*, int, int, int)': -layer3/Executive.cpp:16050:42: warning: '%s' directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=] - sprintf(I->ReorderLog, "cmd.order(\"%s\",location=\"%s\")\n", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - order_input, (location == -2) ? "upper" : "current"); - ~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer3/Executive.cpp:16: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 32 and 1057 bytes into a destination of size 1024 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer4/Export.cpp -o build/temp.linux-amd64-2.7/layer4/Export.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 68 and 333 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'void ExecutiveManageObject(PyMOLGlobals*, CObject*, int, int)': layer3/Executive.cpp:15045:13: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=] " Executive: object \"%s\" created.\n", obj->Name ENDFB(G); @@ -4626,10 +4599,22 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer5/main.cpp: In function 'void launch(CPyMOLOptions*, int)': -layer5/main.cpp:1480:31: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] - char *myArgv[8] = {"pymol"}; - ^ +layer2/ObjectMolecule.cpp: In function 'int ObjectMoleculeMoveAtom(ObjectMolecule*, int, int, float*, int, int)': +layer2/ObjectMolecule.cpp:11416:21: warning: '%s' directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=] + sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + buffer, v[0], v[1], v[2], state + 1, mode, 0); + ~~~~~~ +layer2/ObjectMolecule.cpp:11416:21: note: directive argument in the range [-2147483647, 2147483647] +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer2/ObjectMolecule.cpp:16: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 78 and 2036 bytes into a destination of size 1024 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveSetName(PyMOLGlobals*, const char*, const char*)': layer3/Executive.cpp:3561:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 234 [-Wformat-truncation=] "SetName-Error: name '%s' is a selection keyword.\n", name ENDFB(G); @@ -4643,36 +4628,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer3/Seeker.cpp: In function 'void SeekerSelectionToggleRange(PyMOLGlobals*, CSeqRow*, int, int, int, int, int)': -layer3/Seeker.cpp:148:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 752 and 1009 [-Wformat-overflow=] - sprintf(buf2, "%scmd.select(\"%s\",\"%s\",enable=1)\n", prefix, selName, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - buf1); - ~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer3/Seeker.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 28 and 1308 bytes into a destination of size 1024 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer3/Seeker.cpp: In function 'void SeekerSelectionToggle(PyMOLGlobals*, CSeqRow*, int, int, int, int)': -layer3/Seeker.cpp:232:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 752 and 1009 [-Wformat-overflow=] - sprintf(buf2, "%scmd.select(\"%s\",\"%s\",enable=1)\n", prefix, selName, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - buf1); - ~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python2.7/Python.h:33, - from layer0/os_python.h:34, - from layer3/Seeker.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 28 and 1308 bytes into a destination of size 1024 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveSetSession(PyMOLGlobals*, PyObject*, int, int)': layer3/Executive.cpp:5217:13: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 213 [-Wformat-truncation=] " Executive: skipping unrecognized object \"%s\" of type %d.\n", @@ -4698,6 +4653,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer4/PopUp.cpp -o build/temp.linux-amd64-2.7/layer4/PopUp.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'void ExecutiveSelectRect(PyMOLGlobals*, BlockRect*, int)': layer3/Executive.cpp:7616:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 751 and 1008 [-Wformat-overflow=] sprintf(buf2, "%scmd.select(\"%s\",\"(%s)\",enable=1)\n", prefix, selName, @@ -4727,6 +4683,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/SculptCache.cpp -o build/temp.linux-amd64-2.7/layer2/SculptCache.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'void ExecutiveCopy(PyMOLGlobals*, const char*, const char*, int)': layer3/Executive.cpp:10398:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=] " Executive: object %s created.\n", oDst->Obj.Name ENDFB(G); @@ -4740,7 +4697,36 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c modules/cealign/src/ccealignmodule.cpp -o build/temp.linux-amd64-2.7/modules/cealign/src/ccealignmodule.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer3/Seeker.cpp: In function 'void SeekerSelectionToggleRange(PyMOLGlobals*, CSeqRow*, int, int, int, int, int)': +layer3/Seeker.cpp:148:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 752 and 1009 [-Wformat-overflow=] + sprintf(buf2, "%scmd.select(\"%s\",\"%s\",enable=1)\n", prefix, selName, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + buf1); + ~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer3/Seeker.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 28 and 1308 bytes into a destination of size 1024 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer3/Seeker.cpp: In function 'void SeekerSelectionToggle(PyMOLGlobals*, CSeqRow*, int, int, int, int)': +layer3/Seeker.cpp:232:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 752 and 1009 [-Wformat-overflow=] + sprintf(buf2, "%scmd.select(\"%s\",\"%s\",enable=1)\n", prefix, selName, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + buf1); + ~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer3/Seeker.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 28 and 1308 bytes into a destination of size 1024 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'void ExecutiveSymExp(PyMOLGlobals*, const char*, const char*, const char*, float, int, int)': layer3/Executive.cpp:14715:21: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 238 [-Wformat-truncation=] "new_name before: %s\n", new_name ENDFB(G); @@ -4772,8 +4758,45 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer4/Menu.cpp -o build/temp.linux-amd64-2.7/layer4/Menu.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/Selector.cpp -o build/temp.linux-amd64-2.7/layer3/Selector.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectVolume.cpp: In function 'ObjectMapState* ObjectVolumeGetMapState(ObjectVolume*)': +layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] + "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer2/ObjectVolume.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectVolume.cpp: In function 'CField* ObjectVolumeGetField(ObjectVolume*)': +layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] + "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer2/ObjectVolume.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectVolume.cpp: In function 'void ObjectVolumeUpdate(ObjectVolume*)': +layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] + "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer2/ObjectVolume.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveProcessPDBFile(PyMOLGlobals*, CObject*, const char*, const char*, const char*, int, int, int, char*, int, int, int, int)': layer3/Executive.cpp:4238:35: warning: '%04d' directive writing between 4 and 10 bytes into a region of size between 0 and 255 [-Wformat-overflow=] sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1); @@ -4865,6 +4888,19 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectVolume.cpp: In function 'void ObjectVolumeRender(ObjectVolume*, RenderInfo*)': +layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] + "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python2.7/Python.h:33, + from layer0/os_python.h:34, + from layer2/ObjectVolume.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveLoad(PyMOLGlobals*, const char*, int, int, const char*, int, int, int, int, int, int, const char*, const char*, const char*, bool)': layer3/Executive.cpp:3989:7: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] "%s", buf ENDFB(G); @@ -4878,8 +4914,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer2/SculptCache.cpp -o build/temp.linux-amd64-2.7/layer2/SculptCache.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer4/PopUp.cpp -o build/temp.linux-amd64-2.7/layer4/PopUp.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/Selector.cpp -o build/temp.linux-amd64-2.7/layer3/Selector.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/MaeExportHelpers.cpp -o build/temp.linux-amd64-2.7/layer3/MaeExportHelpers.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python2.7 -c layer3/MoleculeExporter.cpp -o build/temp.linux-amd64-2.7/layer3/MoleculeExporter.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Selector.cpp: In function 'int SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)': @@ -4964,10 +4999,10 @@ x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/champ.c -o build/temp.linux-amd64-2.7/contrib/champ/champ.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/champ_module.c -o build/temp.linux-amd64-2.7/contrib/champ/champ_module.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/chiral.c -o build/temp.linux-amd64-2.7/contrib/champ/chiral.o -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/err2.c -o build/temp.linux-amd64-2.7/contrib/champ/err2.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/feedback2.c -o build/temp.linux-amd64-2.7/contrib/champ/feedback2.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/list.c -o build/temp.linux-amd64-2.7/contrib/champ/list.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/os_memory.c -o build/temp.linux-amd64-2.7/contrib/champ/os_memory.o +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/err2.c -o build/temp.linux-amd64-2.7/contrib/champ/err2.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/sort.c -o build/temp.linux-amd64-2.7/contrib/champ/sort.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/strblock.c -o build/temp.linux-amd64-2.7/contrib/champ/strblock.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/vla.c -o build/temp.linux-amd64-2.7/contrib/champ/vla.o @@ -5248,37 +5283,24 @@ x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c build/generated/ShaderText.cpp -o build/temp.linux-amd64-3.7/build/generated/ShaderText.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function 'PlugIOManagerInitAll': -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:267:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - if(ok) ok = ok && (molfile_xyzplugin_init() == VMDPLUGIN_SUCCESS); - ^~ -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:269:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - if(ok) { - ^~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function 'read_next_timestep': contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:103:10: warning: variable 'numatoms' set but not used [-Wunused-but-set-variable] int i, numatoms; ^~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function 'PlugIOManagerFreeAll': -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:405:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - if(ok) ok = ok && (molfile_xyzplugin_fini() == VMDPLUGIN_SUCCESS); - ^~ -contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:407:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - return ok; - ^~~~~~ contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c: In function 'open_namdbin_read': contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c:78:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] fread(&filen, sizeof(namdbin_int32), 1, fd); @@ -5287,6 +5309,37 @@ contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:84:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(&dataBegin, sizeof(int), 1, fd); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function 'int read_brix_data(void*, int, float*, float*)': +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:247:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(brick, sizeof(char), 512, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function 'void* open_brix_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:79:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, "%3s", keyWord); + ~~~~~~^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:86:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, " %s %d %d %d", keyWord, &org_x, &org_y, &org_z); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:93:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, " %s %d %d %d", keyWord, &ext_x, &ext_y, &ext_z); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:100:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, " %s %f %f %f", keyWord, &grid_x, &grid_y, &grid_z); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:109:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, " %s %f %f %f %f %f %f", keyWord, + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + &cell_x, &cell_y, &cell_z, &cell_alpha, &cell_beta, &cell_gamma); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:123:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, " %s %f", keyWord, &prod); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:128:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, " %s %f", keyWord, &plus); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:135:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, " %s %f", keyWord, &sigma); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function 'int read_mol2_timestep(void*, int, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:275:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, mol2->file); @@ -5308,6 +5361,13 @@ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:138:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, mol2->file); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function 'PlugIOManagerInitAll': +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:267:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + if(ok) ok = ok && (molfile_xyzplugin_init() == VMDPLUGIN_SUCCESS); + ^~ +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:269:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + if(ok) { + ^~ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp: In function 'void* open_mol2_read(const char*, const char*, int*)': contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:74:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); @@ -5324,6 +5384,13 @@ contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp:92:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); // Read the charge_type ~~~~~^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c: In function 'PlugIOManagerFreeAll': +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:405:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + if(ok) ok = ok && (molfile_xyzplugin_fini() == VMDPLUGIN_SUCCESS); + ^~ +contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c:407:8: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + return ok; + ^~~~~~ contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp: In function 'int read_dsn6_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:233:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(brick, sizeof(char), 512, fd); @@ -5332,6 +5399,57 @@ contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:91:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(fileHeader, sizeof(short), 19, fd); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)': +contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:96:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, 80, infile); + ~~~~~^~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:104:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, 80, infile); + ~~~~~^~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:119:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, 80, infile); + ~~~~~^~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:131:14: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, 80, infile); + ~~~~~^~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:153:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, 80, infile); + ~~~~~^~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:162:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, 80, infile); + ~~~~~^~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:171:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, 80, infile); + ~~~~~^~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function 'void* open_plt_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:69:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(intHeader, sizeof(int), 5, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:82:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(floatHeader, sizeof(float), 6, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp: In function 'void* open_fs4_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:79:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(&dataBegin, sizeof(int), 1, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_timestep': +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:283:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_structure': +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:228:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 4; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:233:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:237:32: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 2; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:252:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 10 - data->version; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function 'read_vaspchgcar_data': contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:237:60: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] for (n = 0; n < data->numatoms + data->version + 5; ++n) fgets(lineptr, LINESIZE, data->file); @@ -5343,6 +5461,22 @@ contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:150:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'open_vaspxdatcar_read': +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:89:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:92:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:97:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:111:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:121:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, poscar); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c: In function 'open_vaspchgcar_read': contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:71:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); @@ -5362,76 +5496,11 @@ contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:131:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function 'int read_brix_data(void*, int, float*, float*)': -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:247:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(brick, sizeof(char), 512, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp: In function 'void* open_brix_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:79:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, "%3s", keyWord); - ~~~~~~^~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:86:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, " %s %d %d %d", keyWord, &org_x, &org_y, &org_z); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:93:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, " %s %d %d %d", keyWord, &ext_x, &ext_y, &ext_z); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:100:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, " %s %f %f %f", keyWord, &grid_x, &grid_y, &grid_z); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:109:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, " %s %f %f %f %f %f %f", keyWord, - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - &cell_x, &cell_y, &cell_z, &cell_alpha, &cell_beta, &cell_gamma); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:123:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, " %s %f", keyWord, &prod); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:128:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, " %s %f", keyWord, &plus); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp:135:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, " %s %f", keyWord, &sigma); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp: In function 'void* open_fs4_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:79:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(&dataBegin, sizeof(int), 1, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function 'void* open_plt_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:69:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(intHeader, sizeof(int), 5, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:82:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(floatHeader, sizeof(float), 6, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)': -contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:96:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, 80, infile); - ~~~~~^~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:104:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, 80, infile); - ~~~~~^~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:119:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, 80, infile); - ~~~~~^~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:131:14: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, 80, infile); - ~~~~~^~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:153:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, 80, infile); - ~~~~~^~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:162:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, 80, infile); - ~~~~~^~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:171:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, 80, infile); - ~~~~~^~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp: In function 'void* open_cube_read(const char*, const char*, int*)': contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:175:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(readbuf, 1023, cube->fd); // go on to next line @@ -5454,39 +5523,18 @@ contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:347:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(readbuf, 1023, cube->fd); // gobble up rest of line ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/offplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'DEN_read_volumetric_data': -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:970:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] - fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:971:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] - fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'POT_read_volumetric_data': -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1113:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] - fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1114:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] - fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'abinit_header': -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1511:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] - fread(skip, 1, 8, fp); - ^~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'GEO_read_next_timestep': -contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:619:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] - fscanf(data->file, "%*s %f %f %f", &x, &y, &z); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30: contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function 'int mdio_readline(md_file*, char*, int, int)': contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:426:7: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf, n, mf->f); ~~~~~^~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function 'read_car_timestep': contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:326:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, data->file); @@ -5553,6 +5601,28 @@ contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:245:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); ^~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'DEN_read_volumetric_data': +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:970:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] + fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:971:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] + fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'POT_read_volumetric_data': +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1113:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] + fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1114:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] + fread(recordmarker, 1, data->hdr->bintype.recordmarker, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'abinit_header': +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:1511:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] + fread(skip, 1, 8, fp); + ^~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c: In function 'GEO_read_next_timestep': +contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.c:619:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] + fscanf(data->file, "%*s %f %f %f", &x, &y, &z); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from contrib/uiuc/plugins/molfile_plugin/src/plyplugin.cpp:30: contrib/uiuc/plugins/molfile_plugin/src/ply_c.h: In function 'void binary_get_element(PlyFile*, char*)': contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:1629:13: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] @@ -5586,26 +5656,24 @@ contrib/uiuc/plugins/molfile_plugin/src/ply_c.h:2099:13: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread (ptr, 8, 1, fp); ~~~~~~^~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function 'read_car_structure': +contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:29: warning: '%d' directive writing between 1 and 11 bytes into a region of size 8 [-Wformat-overflow=] + sprintf(atom->resname, "%d", resid); + ^~ +contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:28: note: directive argument in the range [-2147483648, 9999999] + sprintf(atom->resname, "%d", resid); + ^~~~ +In file included from /usr/include/stdio.h:873, + from contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:85: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 2 and 12 bytes into a destination of size 8 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'read_molden_rundata': contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:596:25: warning: variable 'hessian_data' set but not used [-Wunused-but-set-variable] molfile_qm_hessian_t *hessian_data; ^~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'count_orbitals': -contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1165:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] - fscanf(data->file, " Ene= %f\n", &orbenergy); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1166:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] - fscanf(data->file, " Spin= %s\n", spin); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1167:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] - fscanf(data->file, " Occup= %f\n", &occu); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49: -contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function 'eatline': -contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 1024, fd); - ^~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp: In function 'int read_bgf_timestep(void*, int, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, bgf->file); @@ -5637,43 +5705,45 @@ contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp:59:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); ~~~~~^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'count_orbitals': +contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1165:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] + fscanf(data->file, " Ene= %f\n", &orbenergy); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1166:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] + fscanf(data->file, " Spin= %s\n", spin); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:1167:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] + fscanf(data->file, " Occup= %f\n", &occu); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:49: +contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function 'eatline': +contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 1024, fd); + ^~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c: In function 'open_molden_read': contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:224:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(data->file, "%d", &natm); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'have_gamess': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1106:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] char word[3][BUFSIZ]; ^~~~ -contrib/uiuc/plugins/molfile_plugin/src/carplugin.c: In function 'read_car_structure': -contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:29: warning: '%d' directive writing between 1 and 11 bytes into a region of size 8 [-Wformat-overflow=] - sprintf(atom->resname, "%d", resid); - ^~ -contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:127:28: note: directive argument in the range [-2147483648, 9999999] - sprintf(atom->resname, "%d", resid); - ^~~~ -In file included from /usr/include/stdio.h:873, - from contrib/uiuc/plugins/molfile_plugin/src/carplugin.c:85: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 2 and 12 bytes into a destination of size 8 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_basis_stats': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2264:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] char word[7][BUFSIZ]; ^~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_wavefunction': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:3573:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] char word[6][BUFSIZ]; ^~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h: In function 'eatline': contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:840:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(readbuf, 1024, fd); ^~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function 'open_rst_read': contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:48:11: warning: variable 'timesteprst' set but not used [-Wunused-but-set-variable] double timesteprst; @@ -5684,6 +5754,12 @@ contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:70:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 82, fd); ^~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'void* open_uhbd_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:102:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(&headersize, sizeof(int), 1, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c: In function 'read_vaspoutcar_timestep': contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:239:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); @@ -5699,27 +5775,26 @@ contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:87:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'void* open_uhbd_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:102:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(&headersize, sizeof(int), 1, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function 'void* open_ccp4_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:304:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(symData, 81, fd); - ~~~~~^~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function 'read_dcdstep': -contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:546:16: warning: variable 'readlen' set but not used [-Wunused-but-set-variable] - fio_size_t readlen; /* number of bytes actually read */ - ^~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function 'read_vaspxml_structure': +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:139:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:144:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function 'open_vaspxml_read': +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:86:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:92:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp: In function 'int read_parm7_structure(void*, int*, molfile_atom_t*)': contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:78:14: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf, 85, file); ~~~~~^~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon In file included from contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp:25: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h: In function 'int parse_parm7_atoms(const char*, int, molfile_atom_t*, FILE*)': contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:204:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] @@ -5794,34 +5869,16 @@ contrib/uiuc/plugins/molfile_plugin/src/ReadPARM7.h:97:9: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] fscanf(file, "%s\n", buf); ~~~~~~^~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c: In function 'read_dcdstep': +contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:546:16: warning: variable 'readlen' set but not used [-Wunused-but-set-variable] + fio_size_t readlen; /* number of bytes actually read */ + ^~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function 'void* open_ccp4_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:304:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(symData, 81, fd); + ~~~~~^~~~~~~~~~~~~~~~~ x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function 'read_vaspparchg_data': -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:238:60: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (n = 0; n < data->numatoms + data->version + 5; ++n) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function 'read_vaspparchg_metadata': -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:150:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function 'open_vaspparchg_read': -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:71:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:75:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:81:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:92:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:103:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:131:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c: In function 'read_vasp5xdatcar_timestep': contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:224:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); @@ -5852,77 +5909,39 @@ contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.c:77:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c: In function 'open_binpos_read': -contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:64:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] - fread(magicchar,sizeof(char),4,fd); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:72:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] - fread(&igarb,sizeof(int),1,fd); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function 'int read_spider_data(void*, int, float*, float*)': -contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:286:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fread(datablock, total * sizeof(float), 1, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_timestep': -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:283:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function 'read_vaspparchg_data': +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:238:60: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (n = 0; n < data->numatoms + data->version + 5; ++n) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function 'read_vaspparchg_metadata': +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:150:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_structure': -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:228:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 4; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:233:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:237:32: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 2; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:252:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 10 - data->version; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c: In function 'open_vaspxdatcar_read': -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:89:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:92:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:97:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:111:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:121:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, poscar); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function 'write_vaspposcar_timestep': -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:360:40: warning: argument to 'sizeof' in 'strncpy' call is the same expression as the source; did you mean to use the size of the destination? [-Wsizeof-pointer-memaccess] - strncpy(tmptype, atom->type, sizeof(atom->type)); - ^ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function 'read_vaspposcar_timestep': -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:232:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c: In function 'open_vaspparchg_read': +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:71:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:237:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:246:43: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < data->version - 2; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:249:35: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:256:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:75:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:81:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(lineptr, LINESIZE, data->file); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:92:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:103:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:131:44: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < data->numatoms + 2; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon In file included from contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp:24: contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h: In member function 'int {anonymous}::ReadPARM::readparm(FILE*)': contrib/uiuc/plugins/molfile_plugin/src/ReadPARM.h:435:17: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] @@ -5982,28 +6001,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~~~ &prm->Xcap, &prm->Ycap, &prm->Zcap); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function 'read_vaspposcar_structure': -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:195:42: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < data->version + 3; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:198:34: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:203:4: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function 'open_vaspposcar_read': -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:69:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:73:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:87:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp: In function 'int read_xbgf_timestep(void*, int, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:288:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, bgf->file); @@ -6035,7 +6032,66 @@ contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp:72:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, LINESIZE, fd); ~~~~~^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c: In function 'open_binpos_read': +contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:64:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] + fread(magicchar,sizeof(char),4,fd); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c:72:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] + fread(&igarb,sizeof(int),1,fd); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function 'write_vaspposcar_timestep': +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:360:40: warning: argument to 'sizeof' in 'strncpy' call is the same expression as the source; did you mean to use the size of the destination? [-Wsizeof-pointer-memaccess] + strncpy(tmptype, atom->type, sizeof(atom->type)); + ^ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function 'read_vaspposcar_timestep': +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:232:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:237:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:246:43: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < data->version - 2; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:249:35: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:256:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function 'read_vaspposcar_structure': +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:195:42: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < data->version + 3; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:198:34: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + if (tolower(lineptr[0]) == 's') fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:203:4: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c: In function 'open_vaspposcar_read': +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:69:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:73:27: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + for (i = 0; i < 5; ++i) fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:87:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(lineptr, LINESIZE, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function 'vtf_read_bonds': +contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:147:48: warning: '%s' directive argument is null [-Wformat-overflow=] + sprintf(message, "vtfplugin:%d: error: %s: \"%s\"\n", + ^~ +contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function 'int read_spider_data(void*, int, float*, float*)': +contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:286:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fread(datablock, total * sizeof(float), 1, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Crystal.cpp -o build/temp.linux-amd64-3.7/layer0/Crystal.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Feedback.cpp -o build/temp.linux-amd64-3.7/layer0/Feedback.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_basis_options': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1398:41: warning: '%s' directive writing up to 8191 bytes into a region of size 8190 [-Wformat-overflow=] sprintf(data->basis_string, "%d-%s%sG%s", @@ -6063,45 +6119,9 @@ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Feedback.cpp -o build/temp.linux-amd64-3.7/layer0/Feedback.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/GraphicsUtil.cpp -o build/temp.linux-amd64-3.7/layer0/GraphicsUtil.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function 'read_vaspxml_structure': -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:139:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:144:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c: In function 'open_vaspxml_read': -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:86:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:92:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(lineptr, LINESIZE, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_config_structure': -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:292:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] - if (NULL == fgets(fbuffer, 1024, data->file)) - ^~ -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:295:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' - if (NULL == fgets(fbuffer, 1024, data->file)) - ^~ -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_config_timestep': -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:669:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(fbuffer, 1024, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_timestep': -contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:554:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] - fgets(fbuffer, 1024, data->file); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function 'get_atom_radius': contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:166:16: warning: variable 'type' set but not used [-Wunused-but-set-variable] char *name, *type; @@ -6140,22 +6160,40 @@ contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.cpp:256:15: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(line, 80, infile); ~~~~~^~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Matrix.cpp -o build/temp.linux-amd64-3.7/layer0/Matrix.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/inthash.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/inthash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Field.cpp -o build/temp.linux-amd64-3.7/layer0/Field.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function 'vtf_read_bonds': -contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:147:48: warning: '%s' directive argument is null [-Wformat-overflow=] - sprintf(message, "vtfplugin:%d: error: %s: \"%s\"\n", - ^~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Parse.cpp -o build/temp.linux-amd64-3.7/layer0/Parse.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/ShaderPrg.cpp -o build/temp.linux-amd64-3.7/layer0/ShaderPrg.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function 'int read_vtk_data_ex(void*, molfile_volumetric_readwrite_t*)': +contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:371:15: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function 'int read_vtk_data(void*, int, float*, float*)': +contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:306:15: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] + fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); + ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_config_structure': +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:292:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] + if (NULL == fgets(fbuffer, 1024, data->file)) + ^~ +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:295:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' + if (NULL == fgets(fbuffer, 1024, data->file)) + ^~ +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_config_timestep': +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:669:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(fbuffer, 1024, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c: In function 'read_dlpoly_timestep': +contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c:554:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] + fgets(fbuffer, 1024, data->file); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Tracker.cpp -o build/temp.linux-amd64-3.7/layer0/Tracker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Isosurf.cpp -o build/temp.linux-amd64-3.7/layer0/Isosurf.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Vector.cpp -o build/temp.linux-amd64-3.7/layer0/Vector.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Field.cpp -o build/temp.linux-amd64-3.7/layer0/Field.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Parse.cpp -o build/temp.linux-amd64-3.7/layer0/Parse.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp: In function 'void eatline(FILE*)': contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:238:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(readbuf, 1024, fd); // go on to next line @@ -6185,20 +6223,19 @@ contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:508:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(readbuf, 256, xsf->fd); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Pixmap.cpp -o build/temp.linux-amd64-3.7/layer0/Pixmap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/ShaderPrg.cpp -o build/temp.linux-amd64-3.7/layer0/ShaderPrg.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Tracker.cpp -o build/temp.linux-amd64-3.7/layer0/Tracker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/inthash.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/inthash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Vector.cpp -o build/temp.linux-amd64-3.7/layer0/Vector.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Isosurf.cpp -o build/temp.linux-amd64-3.7/layer0/Isosurf.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/ButMode.cpp -o build/temp.linux-amd64-3.7/layer1/ButMode.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function 'int read_vtk_data_ex(void*, molfile_volumetric_readwrite_t*)': -contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:371:15: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp: In function 'int read_vtk_data(void*, int, float*, float*)': -contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.cpp:306:15: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] - fscanf(fd, "%lf %lf %lf", &vx, &vy, &vz); - ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Triangle.cpp -o build/temp.linux-amd64-3.7/layer0/Triangle.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Color.cpp -o build/temp.linux-amd64-3.7/layer1/Color.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUT.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUT.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Pixmap.cpp -o build/temp.linux-amd64-3.7/layer0/Pixmap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Triangle.cpp -o build/temp.linux-amd64-3.7/layer0/Triangle.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Block.cpp -o build/temp.linux-amd64-3.7/layer0/Block.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'std::__cxx11::string framefile(const string&, size_t, size_t, int, int)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:675:22: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=] sprintf(answer, "%03x/", d1); @@ -6224,9 +6261,8 @@ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Queue.cpp -o build/temp.linux-amd64-3.7/layer0/Queue.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUT.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUT.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Block.cpp -o build/temp.linux-amd64-3.7/layer0/Block.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/ShaderMgr.cpp -o build/temp.linux-amd64-3.7/layer0/ShaderMgr.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUTHel12.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUTHel12.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'void DDmkdir(const string&, mode_t, int, int)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:714:15: warning: '%03x' directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=] sprintf(sub, "%03x/", i); @@ -6253,6 +6289,8 @@ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUTHel18.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUTHel18.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Debug.cpp -o build/temp.linux-amd64-3.7/layer0/Debug.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp: In function 'void line3(FILE*, GRASSP*)': contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:186:8: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(line3, 1, 80, infile); @@ -6423,87 +6461,37 @@ contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:398:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fread(properties, sizeof(float), 3 * nvert, infile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Debug.cpp -o build/temp.linux-amd64-3.7/layer0/Debug.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Deferred.cpp -o build/temp.linux-amd64-3.7/layer0/Deferred.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Err.cpp -o build/temp.linux-amd64-3.7/layer0/Err.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/File.cpp -o build/temp.linux-amd64-3.7/layer0/File.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/GenericBuffer.cpp -o build/temp.linux-amd64-3.7/layer0/GenericBuffer.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUTHel12.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUTHel12.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontType.cpp -o build/temp.linux-amd64-3.7/layer1/FontType.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Ortho.cpp -o build/temp.linux-amd64-3.7/layer1/Ortho.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/File.cpp -o build/temp.linux-amd64-3.7/layer0/File.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/PyMOLObject.cpp -o build/temp.linux-amd64-3.7/layer1/PyMOLObject.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/GenericBuffer.cpp -o build/temp.linux-amd64-3.7/layer0/GenericBuffer.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Word.cpp -o build/temp.linux-amd64-3.7/layer0/Word.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUTHel18.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUTHel18.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Sphere.cpp -o build/temp.linux-amd64-3.7/layer0/Sphere.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/PyMOLObject.cpp -o build/temp.linux-amd64-3.7/layer1/PyMOLObject.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/CGO.cpp -o build/temp.linux-amd64-3.7/layer1/CGO.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontType.cpp -o build/temp.linux-amd64-3.7/layer1/FontType.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUT8x13.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUT8x13.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUT9x15.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUT9x15.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUTHel10.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUTHel10.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Tetsurf.cpp -o build/temp.linux-amd64-3.7/layer0/Tetsurf.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/ScenePicking.cpp -o build/temp.linux-amd64-3.7/layer1/ScenePicking.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/CGO.cpp -o build/temp.linux-amd64-3.7/layer1/CGO.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/FontGLUTHel10.cpp -o build/temp.linux-amd64-3.7/layer1/FontGLUTHel10.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Seq.cpp -o build/temp.linux-amd64-3.7/layer1/Seq.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Tetsurf.cpp -o build/temp.linux-amd64-3.7/layer0/Tetsurf.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Movie.cpp -o build/temp.linux-amd64-3.7/layer1/Movie.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/os_gl.cpp -o build/temp.linux-amd64-3.7/layer0/os_gl.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Basis.cpp -o build/temp.linux-amd64-3.7/layer1/Basis.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Text.cpp -o build/temp.linux-amd64-3.7/layer1/Text.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/AssemblyHelpers.cpp -o build/temp.linux-amd64-3.7/layer2/AssemblyHelpers.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Util.cpp -o build/temp.linux-amd64-3.7/layer0/Util.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Map.cpp -o build/temp.linux-amd64-3.7/layer0/Map.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/P.cpp -o build/temp.linux-amd64-3.7/layer1/P.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Movie.cpp -o build/temp.linux-amd64-3.7/layer1/Movie.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Ray.cpp -o build/temp.linux-amd64-3.7/layer1/Ray.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Control.cpp -o build/temp.linux-amd64-3.7/layer1/Control.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Util2.cpp -o build/temp.linux-amd64-3.7/layer0/Util2.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/SceneRay.cpp -o build/temp.linux-amd64-3.7/layer1/SceneRay.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/MemoryCache.cpp -o build/temp.linux-amd64-3.7/layer0/MemoryCache.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/MemoryDebug.cpp -o build/temp.linux-amd64-3.7/layer0/MemoryDebug.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function 'int read_edm_data(void*, int, float*, float*)': -contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:240:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 13, edm->fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function 'void eatline(FILE*)': -contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:44:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(readbuf, 1024, fd); // go on to next line - ~~~~~^~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/AssemblyHelpers.cpp -o build/temp.linux-amd64-3.7/layer2/AssemblyHelpers.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/MyPNG.cpp -o build/temp.linux-amd64-3.7/layer0/MyPNG.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/CifFile.cpp -o build/temp.linux-amd64-3.7/layer2/CifFile.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Ray.cpp -o build/temp.linux-amd64-3.7/layer1/Ray.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Setting.cpp -o build/temp.linux-amd64-3.7/layer1/Setting.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Match.cpp -o build/temp.linux-amd64-3.7/layer0/Match.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/GadgetSet.cpp -o build/temp.linux-amd64-3.7/layer2/GadgetSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'int read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)': -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:278:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:297:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:319:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:357:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'int read_mdf_structure(void*, int*, molfile_atom_t*)': -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:223:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:241:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, mdf->file); - ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'void* open_mdf_read(const char*, const char*, int*)': -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:164:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:176:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~ -contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:183:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] - fgets(line, LINESIZE, fd); - ~~~~~^~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Util2.cpp -o build/temp.linux-amd64-3.7/layer0/Util2.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Map.cpp -o build/temp.linux-amd64-3.7/layer0/Map.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/AtomInfo.cpp -o build/temp.linux-amd64-3.7/layer2/AtomInfo.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer1/Movie.cpp: In function 'int MovieRelease(Block*, int, int, int, int)': layer1/Movie.cpp:1755:24: warning: '%s' directive writing up to 1023 bytes into a region of size between 972 and 992 [-Wformat-overflow=] sprintf(buffer,"cmd.mview('clear',first=%d,last=%d%s)", @@ -6567,9 +6555,18 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Texture.cpp -o build/temp.linux-amd64-3.7/layer0/Texture.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/Mol2Typing.cpp -o build/temp.linux-amd64-3.7/layer2/Mol2Typing.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectCallback.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectCallback.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/CifFile.cpp -o build/temp.linux-amd64-3.7/layer2/CifFile.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function 'int read_edm_data(void*, int, float*, float*)': +contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:240:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 13, edm->fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function 'void eatline(FILE*)': +contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:44:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(readbuf, 1024, fd); // go on to next line + ~~~~~^~~~~~~~~~~~~~~~~~~ layer1/Movie.cpp: In function 'void MovieModalPNG(PyMOLGlobals*, CMovie*, CMovieModal*)': layer1/Movie.cpp:803:11: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 221 [-Wformat-truncation=] " MoviePNG-Error: unable to write '%s'\n", M->fname ENDFB(G); @@ -6583,20 +6580,60 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/AtomInfo.cpp -o build/temp.linux-amd64-3.7/layer2/AtomInfo.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/SceneRender.cpp -o build/temp.linux-amd64-3.7/layer1/SceneRender.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/CifMoleculeReader.cpp -o build/temp.linux-amd64-3.7/layer2/CifMoleculeReader.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'int read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)': +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:278:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:297:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:319:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:357:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'int read_mdf_structure(void*, int*, molfile_atom_t*)': +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:223:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:241:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, mdf->file); + ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp: In function 'void* open_mdf_read(const char*, const char*, int*)': +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:164:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:176:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~ +contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:183:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] + fgets(line, LINESIZE, fd); + ~~~~~^~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/GadgetSet.cpp -o build/temp.linux-amd64-3.7/layer2/GadgetSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/Mol2Typing.cpp -o build/temp.linux-amd64-3.7/layer2/Mol2Typing.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectCallback.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectCallback.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Texture.cpp -o build/temp.linux-amd64-3.7/layer0/Texture.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Extrude.cpp -o build/temp.linux-amd64-3.7/layer1/Extrude.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/Match.cpp -o build/temp.linux-amd64-3.7/layer0/Match.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/CifMoleculeReader.cpp -o build/temp.linux-amd64-3.7/layer2/CifMoleculeReader.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/PConv.cpp -o build/temp.linux-amd64-3.7/layer1/PConv.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectGroup.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectGroup.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/MemoryCache.cpp -o build/temp.linux-amd64-3.7/layer0/MemoryCache.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/MolV3000.cpp -o build/temp.linux-amd64-3.7/layer2/MolV3000.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/MemoryDebug.cpp -o build/temp.linux-amd64-3.7/layer0/MemoryDebug.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectGroup.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectGroup.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer0/MyPNG.cpp -o build/temp.linux-amd64-3.7/layer0/MyPNG.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/SceneRender.cpp -o build/temp.linux-amd64-3.7/layer1/SceneRender.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectMolecule2.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectMolecule2.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectDist.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectDist.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/HydrogenAdder.cpp -o build/temp.linux-amd64-3.7/layer2/HydrogenAdder.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectMap.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectMap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepAngle.cpp -o build/temp.linux-amd64-3.7/layer2/RepAngle.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Pop.cpp -o build/temp.linux-amd64-3.7/layer1/Pop.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/AtomInfoHistory.cpp -o build/temp.linux-amd64-3.7/layer2/AtomInfoHistory.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectDist.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectDist.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectAlignment.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectAlignment.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepAngle.cpp -o build/temp.linux-amd64-3.7/layer2/RepAngle.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepDistDash.cpp -o build/temp.linux-amd64-3.7/layer2/RepDistDash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectMap.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectMap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Font.cpp -o build/temp.linux-amd64-3.7/layer1/Font.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer1/Ray.cpp: In function 'void RayRenderVRML2(CRay*, int, int, char**, float, float, float, float, float)': layer1/Ray.cpp:1549:19: warning: '%s' directive writing up to 1023 bytes into a region of size between 0 and 914 [-Wformat-overflow=] "Transform {\n" @@ -6625,17 +6662,18 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepLabel.cpp -o build/temp.linux-amd64-3.7/layer2/RepLabel.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Pop.cpp -o build/temp.linux-amd64-3.7/layer1/Pop.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/ScrollBar.cpp -o build/temp.linux-amd64-3.7/layer1/ScrollBar.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepDistDash.cpp -o build/temp.linux-amd64-3.7/layer2/RepDistDash.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepRibbon.cpp -o build/temp.linux-amd64-3.7/layer2/RepRibbon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/MmodTyping.cpp -o build/temp.linux-amd64-3.7/layer2/MmodTyping.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Font.cpp -o build/temp.linux-amd64-3.7/layer1/Font.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/AtomInfoHistory.cpp -o build/temp.linux-amd64-3.7/layer2/AtomInfoHistory.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepLabel.cpp -o build/temp.linux-amd64-3.7/layer2/RepLabel.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectGadget.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectGadget.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepCartoon.cpp -o build/temp.linux-amd64-3.7/layer2/RepCartoon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepRibbon.cpp -o build/temp.linux-amd64-3.7/layer2/RepRibbon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/BondTypeHistory.cpp -o build/temp.linux-amd64-3.7/layer2/BondTypeHistory.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectCGO.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectCGO.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/MmtfMoleculeReader.cpp -o build/temp.linux-amd64-3.7/layer2/MmtfMoleculeReader.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectGadget.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectGadget.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepDistLabel.cpp -o build/temp.linux-amd64-3.7/layer2/RepDistLabel.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepSurface.cpp -o build/temp.linux-amd64-3.7/layer2/RepSurface.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer2/ObjectMolecule2.cpp: In function 'int ObjectMoleculeAddPseudoatom(ObjectMolecule*, int, const char*, const char*, const char*, const char*, const char*, const char*, float, int, float, float, const char*, float*, int, int, int, int)': layer2/ObjectMolecule2.cpp:308:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=] " ObjMol: created %s/%s/%s/%s`%d%c/%s\n", @@ -6649,9 +6687,11 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectCGO.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectCGO.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepSurface.cpp -o build/temp.linux-amd64-3.7/layer2/RepSurface.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/BondTypeHistory.cpp -o build/temp.linux-amd64-3.7/layer2/BondTypeHistory.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepMesh.cpp -o build/temp.linux-amd64-3.7/layer2/RepMesh.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/SideChainHelper.cpp -o build/temp.linux-amd64-3.7/layer2/SideChainHelper.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectGadgetRamp.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectGadgetRamp.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/Editor.cpp -o build/temp.linux-amd64-3.7/layer3/Editor.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepSphere.cpp -o build/temp.linux-amd64-3.7/layer2/RepSphere.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer2/ObjectMap.cpp: In function 'int ObjectMapGRDStrToMap(ObjectMap*, char*, int, int, int)': layer2/ObjectMap.cpp:4311:5: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 243 [-Wformat-truncation=] " ObjectMap: %s\n", cc ENDFB(I->Obj.G); @@ -6677,9 +6717,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepMesh.cpp -o build/temp.linux-amd64-3.7/layer2/RepMesh.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectGadgetRamp.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectGadgetRamp.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/SideChainHelper.cpp -o build/temp.linux-amd64-3.7/layer2/SideChainHelper.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/MovieScene.cpp -o build/temp.linux-amd64-3.7/layer3/MovieScene.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer2/ObjectMap.cpp: In function 'ObjectMap* ObjectMapLoadPHI(PyMOLGlobals*, ObjectMap*, const char*, int, int, int, int)': layer2/ObjectMap.cpp:2983:7: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=] " PHIStrToMap: %s\n", cc ENDFB(I->Obj.G); @@ -6729,19 +6767,10 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepSphere.cpp -o build/temp.linux-amd64-3.7/layer2/RepSphere.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectSlice.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectSlice.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/Editor.cpp -o build/temp.linux-amd64-3.7/layer3/Editor.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepDot.cpp -o build/temp.linux-amd64-3.7/layer2/RepDot.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectMesh.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectMesh.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/CoordSet.cpp -o build/temp.linux-amd64-3.7/layer2/CoordSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Rep.cpp -o build/temp.linux-amd64-3.7/layer1/Rep.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/VFont.cpp -o build/temp.linux-amd64-3.7/layer2/VFont.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/TypeFace.cpp -o build/temp.linux-amd64-3.7/layer1/TypeFace.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/View.cpp -o build/temp.linux-amd64-3.7/layer1/View.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/MovieScene.cpp -o build/temp.linux-amd64-3.7/layer3/MovieScene.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Scene.cpp -o build/temp.linux-amd64-3.7/layer1/Scene.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Shaker.cpp -o build/temp.linux-amd64-3.7/layer1/Shaker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/CoordSet.cpp -o build/temp.linux-amd64-3.7/layer2/CoordSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectSlice.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectSlice.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Editor.cpp: In function 'int EditorLogState(PyMOLGlobals*, int)': layer3/Editor.cpp:588:23: warning: '%s' directive writing up to 1023 bytes into a region of size 1015 [-Wformat-overflow=] sprintf(buffer, "cmd.edit(%s,%s,%s,%s,pkresi=%d,pkbond=%d)", @@ -6759,33 +6788,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/AtomIterators.cpp -o build/temp.linux-amd64-3.7/layer3/AtomIterators.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepNonbonded.cpp -o build/temp.linux-amd64-3.7/layer2/RepNonbonded.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectSlice.cpp: In function 'void ObjectSliceUpdate(ObjectSlice*)': -layer2/ObjectSlice.cpp:686:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 225 [-Wformat-truncation=] - "ObjectSliceUpdate-Error: map '%s' has been deleted.\n", oss->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python3.7m/Python.h:25, - from layer0/os_python.h:34, - from layer2/ObjectSlice.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 51 and 306 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectSlice.cpp:697:13: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 231 [-Wformat-truncation=] - " ObjectSlice: updating \"%s\".\n", I->Obj.Name ENDFB(I->Obj.G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python3.7m/Python.h:25, - from layer0/os_python.h:34, - from layer2/ObjectSlice.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 28 and 283 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Editor.cpp: In function 'void EditorHFill(PyMOLGlobals*, int)': layer3/Editor.cpp:1027:20: warning: '%s' directive writing up to 1023 bytes into a region of size 1012 [-Wformat-overflow=] sprintf(buffer, "((neighbor (%s)) and hydro and not (%s))", @@ -6801,7 +6803,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepSphereGenerate.cpp -o build/temp.linux-amd64-3.7/layer2/RepSphereGenerate.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Editor.cpp: In function 'void EditorPrepareDrag(PyMOLGlobals*, CObject*, int, int, int, int)': layer3/Editor.cpp:1903:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=] " Editor: grabbing (%s).", name ENDFB(G); @@ -6815,21 +6816,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectMesh.cpp: In function 'void ObjectMeshDump(ObjectMesh*, const char*, int)': -layer2/ObjectMesh.cpp:370:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=] - " ObjectMeshDump: %s written to %s\n", I->Obj.Name, fname ENDFB(I->Obj.G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python3.7m/Python.h:25, - from layer0/os_python.h:34, - from layer2/ObjectMesh.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 31 or more bytes (assuming 286) into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepEllipsoid.cpp -o build/temp.linux-amd64-3.7/layer2/RepEllipsoid.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepCylBond.cpp -o build/temp.linux-amd64-3.7/layer2/RepCylBond.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Editor.cpp: In function 'void EditorDefineExtraPks(PyMOLGlobals*)': layer3/Editor.cpp:338:21: warning: '%s' directive writing up to 255 bytes into a region of size 249 [-Wformat-overflow=] sprintf(buffer, "(byres %s)", name); @@ -6867,333 +6853,143 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectMesh.cpp: In function 'void ObjectMeshUpdate(ObjectMesh*)': -layer2/ObjectMesh.cpp:550:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 226 [-Wformat-truncation=] - "ObjectMeshUpdate-Error: map '%s' has been deleted.\n", ms->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectMesh.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectMesh.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer4/Cmd.cpp -o build/temp.linux-amd64-3.7/layer4/Cmd.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Rep.cpp -o build/temp.linux-amd64-3.7/layer1/Rep.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/TypeFace.cpp -o build/temp.linux-amd64-3.7/layer1/TypeFace.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepSphereGenerate.cpp -o build/temp.linux-amd64-3.7/layer2/RepSphereGenerate.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/Executive.cpp -o build/temp.linux-amd64-3.7/layer3/Executive.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepEllipsoid.cpp -o build/temp.linux-amd64-3.7/layer2/RepEllipsoid.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Shaker.cpp -o build/temp.linux-amd64-3.7/layer1/Shaker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/AtomIterators.cpp -o build/temp.linux-amd64-3.7/layer3/AtomIterators.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/View.cpp -o build/temp.linux-amd64-3.7/layer1/View.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepNonbonded.cpp -o build/temp.linux-amd64-3.7/layer2/RepNonbonded.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/CoordSet.cpp: In member function 'void CoordSet::update(int)': +layer2/CoordSet.cpp:1211:39: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 223 [-Wformat-truncation=] + PRINTFB(G, FB_CoordSet, FB_Blather) " CoordSetUpdate-Entered: object %s state %d cset %p\n", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Scene.cpp -o build/temp.linux-amd64-3.7/layer1/Scene.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectSlice.cpp: In function 'void ObjectSliceUpdate(ObjectSlice*)': +layer2/ObjectSlice.cpp:686:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 225 [-Wformat-truncation=] + "ObjectSliceUpdate-Error: map '%s' has been deleted.\n", oss->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectMesh.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 50 and 305 bytes into a destination of size 255 + from layer2/ObjectSlice.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 51 and 306 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectMesh.cpp:584:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 232 [-Wformat-truncation=] - " ObjectMesh: updating \"%s\".\n", I->Obj.Name ENDFB(G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectSlice.cpp:697:13: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 231 [-Wformat-truncation=] + " ObjectSlice: updating \"%s\".\n", I->Obj.Name ENDFB(I->Obj.G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectMesh.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 27 and 282 bytes into a destination of size 255 + from layer2/ObjectSlice.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 28 and 283 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/CoordSet.cpp: In member function 'void CoordSet::update(int)': -layer2/CoordSet.cpp:1211:39: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 223 [-Wformat-truncation=] - PRINTFB(G, FB_CoordSet, FB_Blather) " CoordSetUpdate-Entered: object %s state %d cset %p\n", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectMolecule.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectMolecule.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectSurface.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectSurface.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/Executive.cpp -o build/temp.linux-amd64-3.7/layer3/Executive.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepCylBond.cpp -o build/temp.linux-amd64-3.7/layer2/RepCylBond.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/DistSet.cpp -o build/temp.linux-amd64-3.7/layer2/DistSet.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Symmetry.cpp -o build/temp.linux-amd64-3.7/layer1/Symmetry.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Wizard.cpp -o build/temp.linux-amd64-3.7/layer1/Wizard.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/CifDataValueFormatter.cpp -o build/temp.linux-amd64-3.7/layer3/CifDataValueFormatter.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepSphereImmediate.cpp -o build/temp.linux-amd64-3.7/layer2/RepSphereImmediate.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepNonbondedSphere.cpp -o build/temp.linux-amd64-3.7/layer2/RepNonbondedSphere.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer4/Cmd.cpp -o build/temp.linux-amd64-3.7/layer4/Cmd.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer5/PyMOL.cpp -o build/temp.linux-amd64-3.7/layer5/PyMOL.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVContext.cpp -o build/temp.linux-amd64-3.7/ov/src/OVContext.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVHeap.cpp -o build/temp.linux-amd64-3.7/ov/src/OVHeap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVHeapArray.cpp -o build/temp.linux-amd64-3.7/ov/src/OVHeapArray.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectSurface.cpp: In function 'void ObjectSurfaceDump(ObjectSurface*, const char*, int)': -layer2/ObjectSurface.cpp:293:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=] - " ObjectSurfaceDump: %s written to %s\n", I->Obj.Name, fname ENDFB(I->Obj.G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectMesh.cpp: In function 'void ObjectMeshDump(ObjectMesh*, const char*, int)': +layer2/ObjectMesh.cpp:370:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 238 [-Wformat-truncation=] + " ObjectMeshDump: %s written to %s\n", I->Obj.Name, fname ENDFB(I->Obj.G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectSurface.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 34 or more bytes (assuming 289) into a destination of size 255 + from layer2/ObjectMesh.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 31 or more bytes (assuming 286) into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVLexicon.cpp -o build/temp.linux-amd64-3.7/ov/src/OVLexicon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVOneToAny.cpp -o build/temp.linux-amd64-3.7/ov/src/OVOneToAny.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectSurface.cpp: In function 'void ObjectSurfaceUpdate(ObjectSurface*)': -layer2/ObjectSurface.cpp:528:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=] - " ObjectSurface: updating \"%s\".\n", I->Obj.Name ENDFB(I->Obj.G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepSphereImmediate.cpp -o build/temp.linux-amd64-3.7/layer2/RepSphereImmediate.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer5/PyMOL.cpp -o build/temp.linux-amd64-3.7/layer5/PyMOL.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectMesh.cpp: In function 'void ObjectMeshUpdate(ObjectMesh*)': +layer2/ObjectMesh.cpp:550:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 226 [-Wformat-truncation=] + "ObjectMeshUpdate-Error: map '%s' has been deleted.\n", ms->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectSurface.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 30 and 285 bytes into a destination of size 255 + from layer2/ObjectMesh.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 50 and 305 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectSurface.cpp:497:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 223 [-Wformat-truncation=] - "ObjectSurfaceUpdate-Error: map '%s' has been deleted.\n", ms->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectMesh.cpp:584:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 232 [-Wformat-truncation=] + " ObjectMesh: updating \"%s\".\n", I->Obj.Name ENDFB(G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectSurface.cpp:17: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 53 and 308 bytes into a destination of size 255 + from layer2/ObjectMesh.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 27 and 282 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVOneToOne.cpp -o build/temp.linux-amd64-3.7/ov/src/OVOneToOne.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectMolecule.cpp: In function 'const char* findflag(PyMOLGlobals*, const char*, const char*, const char*)': -layer2/ObjectMolecule.cpp:1525:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 194 [-Wformat-truncation=] - " ObjectMolecule-Error: Unrecognized file format (can't find \"%s\").\n", pat - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVContext.cpp -o build/temp.linux-amd64-3.7/ov/src/OVContext.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Symmetry.cpp -o build/temp.linux-amd64-3.7/layer1/Symmetry.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectSurface.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectSurface.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVHeap.cpp -o build/temp.linux-amd64-3.7/ov/src/OVHeap.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Wizard.cpp -o build/temp.linux-amd64-3.7/layer1/Wizard.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVHeapArray.cpp -o build/temp.linux-amd64-3.7/ov/src/OVHeapArray.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepNonbondedSphere.cpp -o build/temp.linux-amd64-3.7/layer2/RepNonbondedSphere.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectMolecule.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectMolecule.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer4/Cmd.cpp: In function 'PyObject* CmdLoadTraj(PyObject*, PyObject*)': +layer4/Cmd.cpp:7297:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] + "%s", buf ENDFB(G); + ^~~~ ~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectMolecule.cpp:16: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 66 and 1089 bytes into a destination of size 255 + from layer4/Cmd.cpp:45: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin_snprintf' output between 1 and 1024 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectMolecule.cpp:1543:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 194 [-Wformat-truncation=] - " ObjectMolecule-Error: Unrecognized file format (can't find \"%s\").\n", pat - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVLexicon.cpp -o build/temp.linux-amd64-3.7/ov/src/OVLexicon.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer4/Cmd.cpp: In function 'PyObject* CmdLoadObject(PyObject*, PyObject*)': +layer4/Cmd.cpp:7060:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] + "%s", buf ENDFB(G); + ^~~~ ~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectMolecule.cpp:16: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 66 and 1089 bytes into a destination of size 255 + from layer4/Cmd.cpp:45: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin_snprintf' output between 1 and 1024 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepDihedral.cpp -o build/temp.linux-amd64-3.7/layer2/RepDihedral.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectVolume.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectVolume.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectMolecule.cpp: In function 'CoordSet* ObjectMoleculeMOLStr2CoordSet(PyMOLGlobals*, const char*, AtomInfoType**, const char**)': -layer2/ObjectMolecule.cpp:8024:5: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 224 [-Wformat-truncation=] - " ObjMolMOLStr2CoordSet: title '%s'\n", nameTmp ENDFB(G) - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVOneToAny.cpp -o build/temp.linux-amd64-3.7/ov/src/OVOneToAny.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVOneToOne.cpp -o build/temp.linux-amd64-3.7/ov/src/OVOneToOne.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVRandom.cpp -o build/temp.linux-amd64-3.7/ov/src/OVRandom.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/PlugIOManager.cpp -o build/temp.linux-amd64-3.7/layer3/PlugIOManager.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/ov_utility.cpp -o build/temp.linux-amd64-3.7/ov/src/ov_utility.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectSurface.cpp: In function 'void ObjectSurfaceDump(ObjectSurface*, const char*, int)': +layer2/ObjectSurface.cpp:293:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=] + " ObjectSurfaceDump: %s written to %s\n", I->Obj.Name, fname ENDFB(I->Obj.G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectMolecule.cpp:16: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 34 and 289 bytes into a destination of size 255 + from layer2/ObjectSurface.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output 34 or more bytes (assuming 289) into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/OVRandom.cpp -o build/temp.linux-amd64-3.7/ov/src/OVRandom.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c ov/src/ov_utility.cpp -o build/temp.linux-amd64-3.7/ov/src/ov_utility.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer1/Scene.cpp: In function 'int SceneClick(Block*, int, int, int, int, double)': -layer1/Scene.cpp:4103:22: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] - PRINTF " You clicked %s", buffer ENDF(G); - ^~~~~~~~~~~~~~~~~ ~~~~~~ -In file included from layer1/Ortho.h:30, - from layer1/Scene.h:23, - from layer1/Scene.cpp:32: -layer0/Feedback.h:265:53: note: 'snprintf' output between 14 and 1037 bytes into a destination of size 255 - #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, - ^ -layer1/Scene.cpp:4103:15: note: in expansion of macro 'PRINTF' - PRINTF " You clicked %s", buffer ENDF(G); - ^~~~~~ -layer1/Scene.cpp:3971:20: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] - PRINTF " You clicked %s -> (%s)", buffer, cEditorSele1 ENDF(G); - ^~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ -In file included from layer1/Ortho.h:30, - from layer1/Scene.h:23, - from layer1/Scene.cpp:32: -layer0/Feedback.h:265:53: note: 'snprintf' output between 23 and 1046 bytes into a destination of size 255 - #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, - ^ -layer1/Scene.cpp:3971:13: note: in expansion of macro 'PRINTF' - PRINTF " You clicked %s -> (%s)", buffer, cEditorSele1 ENDF(G); - ^~~~~~ -layer1/Scene.cpp:3988:22: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] - PRINTF " You clicked %s -> (%s)", buffer, cEditorSele2 ENDF(G); - ^~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ -In file included from layer1/Ortho.h:30, - from layer1/Scene.h:23, - from layer1/Scene.cpp:32: -layer0/Feedback.h:265:53: note: 'snprintf' output between 23 and 1046 bytes into a destination of size 255 - #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, - ^ -layer1/Scene.cpp:3988:15: note: in expansion of macro 'PRINTF' - PRINTF " You clicked %s -> (%s)", buffer, cEditorSele2 ENDF(G); - ^~~~~~ -layer1/Scene.cpp:3996:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1014 [-Wformat-overflow=] - sprintf(buffer, "cmd.edit(\"%s\",\"%s\")", buf1, buf2); - ^~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ -layer1/Scene.cpp:3996:22: note: 'sprintf' output between 16 and 2062 bytes into a destination of size 1024 - sprintf(buffer, "cmd.edit(\"%s\",\"%s\")", buf1, buf2); - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer1/Scene.cpp:3856:24: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] - PRINTF " You clicked %s -> (%s)\n", buffer, cEditorSele1 ENDF(G); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ -In file included from layer1/Ortho.h:30, - from layer1/Scene.h:23, - from layer1/Scene.cpp:32: -layer0/Feedback.h:265:53: note: 'snprintf' output between 24 and 1047 bytes into a destination of size 255 - #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, - ^ -layer1/Scene.cpp:3856:17: note: in expansion of macro 'PRINTF' - PRINTF " You clicked %s -> (%s)\n", buffer, cEditorSele1 ENDF(G); - ^~~~~~ -layer1/Scene.cpp:3862:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1014 [-Wformat-overflow=] - sprintf(buf2, "cmd.edit(\"%s\",pkresi=1)", buffer); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ -layer1/Scene.cpp:3862:24: note: 'sprintf' output between 22 and 1045 bytes into a destination of size 1024 - sprintf(buf2, "cmd.edit(\"%s\",pkresi=1)", buffer); - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer1/Scene.cpp:3891:24: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=] - PRINTF " You unpicked %s.", buffer ENDF(G); - ^~~~~~~~~~~~~~~~~~~ ~~~~~~ -In file included from layer1/Ortho.h:30, - from layer1/Scene.h:23, - from layer1/Scene.cpp:32: -layer0/Feedback.h:265:53: note: 'snprintf' output between 16 and 1039 bytes into a destination of size 255 - #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, - ^ -layer1/Scene.cpp:3891:17: note: in expansion of macro 'PRINTF' - PRINTF " You unpicked %s.", buffer ENDF(G); - ^~~~~~ -layer1/Scene.cpp:3904:50: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] - PRINTFB(G, FB_Scene, FB_Results) " You clicked %s -> (%s)\n", buffer, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ -In file included from layer1/Ortho.h:30, - from layer1/Scene.h:23, - from layer1/Scene.cpp:32: -layer0/Feedback.h:262:98: note: 'snprintf' output between 21 and 1299 bytes into a destination of size 255 - #define PRINTFB(G,sysmod,mask) { FeedbackLineType _FBstr; if(Feedback(G,sysmod,mask)) {(snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, - ^ -layer1/Scene.cpp:3904:17: note: in expansion of macro 'PRINTFB' - PRINTFB(G, FB_Scene, FB_Results) " You clicked %s -> (%s)\n", buffer, - ^~~~~~~ -layer1/Scene.cpp:4162:20: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] - PRINTF " You clicked %s", buffer ENDF(G); - ^~~~~~~~~~~~~~~~~ ~~~~~~ -In file included from layer1/Ortho.h:30, - from layer1/Scene.h:23, - from layer1/Scene.cpp:32: -layer0/Feedback.h:265:53: note: 'snprintf' output between 14 and 1037 bytes into a destination of size 255 - #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, - ^ -layer1/Scene.cpp:4162:13: note: in expansion of macro 'PRINTF' - PRINTF " You clicked %s", buffer ENDF(G); - ^~~~~~ -layer1/Scene.cpp:4196:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=] - sprintf(buffer, "cmd.drag(\"byobject (%s)\")", buf1); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ -layer1/Scene.cpp:4196:22: note: 'sprintf' output between 24 and 1047 bytes into a destination of size 1024 - sprintf(buffer, "cmd.drag(\"byobject (%s)\")", buf1); - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer1/Scene.cpp:4187:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1007 [-Wformat-overflow=] - sprintf(buffer, "cmd.drag(\"bymol (%s)\")", buf1); - ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ -layer1/Scene.cpp:4187:22: note: 'sprintf' output between 21 and 1044 bytes into a destination of size 1024 - sprintf(buffer, "cmd.drag(\"bymol (%s)\")", buf1); - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer1/Scene.cpp:4247:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1012 [-Wformat-overflow=] - sprintf(buffer, "cmd.center(\"%s\",state=%d)", buf1, I->LastPicked.context.state + 1); - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ -layer1/Scene.cpp:4247:31: note: directive argument in the range [-2147483647, 2147483647] -layer1/Scene.cpp:4247:22: note: 'sprintf' output between 23 and 1056 bytes into a destination of size 1024 - sprintf(buffer, "cmd.center(\"%s\",state=%d)", buf1, I->LastPicked.context.state + 1); - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer1/Scene.cpp:4218:33: warning: '%s' directive writing up to 1023 bytes into a region of size 1012 [-Wformat-overflow=] - sprintf(buffer, "cmd.origin(\"%s\")", buf1); - ^~~~~~~~~~~~~~~~~~~~ ~~~~ -layer1/Scene.cpp:4218:24: note: 'sprintf' output between 15 and 1038 bytes into a destination of size 1024 - sprintf(buffer, "cmd.origin(\"%s\")", buf1); - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer1/Scene.cpp:4225:24: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] - PRINTF " You clicked %s", buffer ENDF(G); - ^~~~~~~~~~~~~~~~~ ~~~~~~ -In file included from layer1/Ortho.h:30, - from layer1/Scene.h:23, - from layer1/Scene.cpp:32: -layer0/Feedback.h:265:53: note: 'snprintf' output between 14 and 1037 bytes into a destination of size 255 - #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, - ^ -layer1/Scene.cpp:4225:17: note: in expansion of macro 'PRINTF' - PRINTF " You clicked %s", buffer ENDF(G); - ^~~~~~ -layer1/Scene.cpp:4312:29: warning: ')' directive writing 1 byte into a region of size between 0 and 1023 [-Wformat-overflow=] - sprintf(buf2, "%s(%s)", sel_mode_kw, buffer); - ^~~~~~~~ -layer1/Scene.cpp:4312:22: note: 'sprintf' output 3 or more bytes (assuming 1026) into a destination of size 1024 - sprintf(buf2, "%s(%s)", sel_mode_kw, buffer); - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer1/Scene.cpp:4319:35: warning: '%s' directive writing up to 1023 bytes into a region of size between 753 and 1008 [-Wformat-overflow=] - sprintf(buffer, "cmd.select('%s',\"%s(%s)\")", selName, sel_mode_kw, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - buf1); - ~~~~ -layer1/Scene.cpp:4319:26: note: 'sprintf' output 20 or more bytes (assuming 1298) into a destination of size 1024 - sprintf(buffer, "cmd.select('%s',\"%s(%s)\")", selName, sel_mode_kw, - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - buf1); - ~~~~~ -layer1/Scene.cpp:4294:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 760 and 1015 [-Wformat-overflow=] - sprintf(buf2, "(((%s) or %s(%s)) and not ((%s(%s)) and %s(%s)))", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - selName, sel_mode_kw, buffer, sel_mode_kw, buffer, sel_mode_kw, - ~~~~~~ -layer1/Scene.cpp:4294:22: note: 'sprintf' output 35 or more bytes (assuming 2591) into a destination of size 1024 - sprintf(buf2, "(((%s) or %s(%s)) and not ((%s(%s)) and %s(%s)))", - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - selName, sel_mode_kw, buffer, sel_mode_kw, buffer, sel_mode_kw, - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - selName); - ~~~~~~~~ -layer1/Scene.cpp:4303:33: warning: '%s' directive writing up to 1023 bytes into a region of size between 760 and 1015 [-Wformat-overflow=] - sprintf(buf2, "(((%s) or %s(%s)) and not ((%s(%s)) and %s(%s)))", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - selName, sel_mode_kw, buffer, sel_mode_kw, buffer, sel_mode_kw, - ~~~~~~ -layer1/Scene.cpp:4303:26: note: 'sprintf' output 35 or more bytes (assuming 2591) into a destination of size 1024 - sprintf(buf2, "(((%s) or %s(%s)) and not ((%s(%s)) and %s(%s)))", - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - selName, sel_mode_kw, buffer, sel_mode_kw, buffer, sel_mode_kw, - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - selName); - ~~~~~~~~ -layer1/Scene.cpp:4306:35: warning: '%s' directive writing up to 1023 bytes into a region of size between 753 and 1008 [-Wformat-overflow=] - sprintf(buffer, "cmd.select('%s',\"%s(%s)\",enable=1)", selName, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - sel_mode_kw, buf2); - ~~~~ -layer1/Scene.cpp:4306:26: note: 'sprintf' output 29 or more bytes (assuming 1307) into a destination of size 1024 - sprintf(buffer, "cmd.select('%s',\"%s(%s)\",enable=1)", selName, - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - sel_mode_kw, buf2); - ~~~~~~~~~~~~~~~~~~ -layer1/Scene.cpp:4271:27: warning: '%s' directive writing up to 1023 bytes into a region of size 1022 [-Wformat-overflow=] - sprintf(buf2, "(%s(%s))", sel_mode_kw, buffer); - ^~~~~~~~~~ ~~~~~~ -layer1/Scene.cpp:4271:20: note: 'sprintf' output 5 or more bytes (assuming 1028) into a destination of size 1024 - sprintf(buf2, "(%s(%s))", sel_mode_kw, buffer); - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer1/Scene.cpp:4282:33: warning: '%s' directive writing up to 1023 bytes into a region of size between 753 and 1008 [-Wformat-overflow=] - sprintf(buffer, "cmd.select('%s',\"%s(%s)\",enable=1)", selName, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - sel_mode_kw, buf1); - ~~~~ -layer1/Scene.cpp:4282:24: note: 'sprintf' output 29 or more bytes (assuming 1307) into a destination of size 1024 - sprintf(buffer, "cmd.select('%s',\"%s(%s)\",enable=1)", selName, - ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - sel_mode_kw, buf1); - ~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepWireBond.cpp -o build/temp.linux-amd64-3.7/layer2/RepWireBond.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer5/PyMOL.cpp: In function 'char* PyMOL_GetClickString(CPyMOL*, int)': layer5/PyMOL.cpp:2846:19: warning: '%s' directive writing up to 255 bytes into a region of size between 137 and 914 [-Wformat-overflow=] "type=object:molecule\nobject=%s\nindex=%d\nrank=%d\nid=%d\nsegi=%s\nchain=%s\nresn=%s\nresi=%d%s\nname=%s\nalt=%s\nclick=%s\nmod_keys=%s\nx=%d\ny=%d\n%s", @@ -7260,6 +7056,31 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectSurface.cpp: In function 'void ObjectSurfaceUpdate(ObjectSurface*)': +layer2/ObjectSurface.cpp:528:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 229 [-Wformat-truncation=] + " ObjectSurface: updating \"%s\".\n", I->Obj.Name ENDFB(I->Obj.G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python3.7m/Python.h:25, + from layer0/os_python.h:34, + from layer2/ObjectSurface.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 30 and 285 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectSurface.cpp:497:11: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 223 [-Wformat-truncation=] + "ObjectSurfaceUpdate-Error: map '%s' has been deleted.\n", ms->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python3.7m/Python.h:25, + from layer0/os_python.h:34, + from layer2/ObjectSurface.cpp:17: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 53 and 308 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveSetBondSettingFromString(PyMOLGlobals*, int, const char*, const char*, const char*, int, int, int)': layer3/Executive.cpp:12098:17: warning: '%s' directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] " Setting: %s set for %d bonds in object \"%s\".\n", @@ -7276,7 +7097,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer5/TestPyMOL.cpp -o build/temp.linux-amd64-3.7/layer5/TestPyMOL.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'PyObject* ExecutiveGetBondSetting(PyMOLGlobals*, int, char*, const char*, int, int, int)': layer3/Executive.cpp:12181:8: warning: '%s' directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] " Getting: %s for %d bonds in object \"%s\".\n", @@ -7321,6 +7141,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepDihedral.cpp -o build/temp.linux-amd64-3.7/layer2/RepDihedral.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'int ExecutiveUnsetBondSetting(PyMOLGlobals*, int, const char*, const char*, int, int, int)': layer3/Executive.cpp:12359:15: warning: '%s' directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] " Setting: %s unset for %d bonds in object \"%s\".\n", @@ -7350,19 +7171,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer4/Cmd.cpp: In function 'PyObject* CmdLoadTraj(PyObject*, PyObject*)': -layer4/Cmd.cpp:7297:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] - "%s", buf ENDFB(G); - ^~~~ ~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python3.7m/Python.h:25, - from layer0/os_python.h:34, - from layer4/Cmd.cpp:45: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin_snprintf' output between 1 and 1024 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp:12453:21: warning: '%s' directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] " Setting: %s set to %s in %d objects, state %d.\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -7461,19 +7269,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectVolume.cpp: In function 'ObjectMapState* ObjectVolumeGetMapState(ObjectVolume*)': -layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] - "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python3.7m/Python.h:25, - from layer0/os_python.h:34, - from layer2/ObjectVolume.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveSetSettingFromString(PyMOLGlobals*, int, const char*, const char*, int, int, int)': layer3/Executive.cpp:12759:21: warning: '%s' directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] " Setting: %s set to %s in %d objects, state %d.\n", @@ -7559,32 +7354,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectVolume.cpp: In function 'CField* ObjectVolumeGetField(ObjectVolume*)': -layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] - "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python3.7m/Python.h:25, - from layer0/os_python.h:34, - from layer2/ObjectVolume.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer4/Cmd.cpp: In function 'PyObject* CmdLoadObject(PyObject*, PyObject*)': -layer4/Cmd.cpp:7060:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] - "%s", buf ENDFB(G); - ^~~~ ~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python3.7m/Python.h:25, - from layer0/os_python.h:34, - from layer4/Cmd.cpp:45: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin_snprintf' output between 1 and 1024 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer5/TestPyMOL.cpp -o build/temp.linux-amd64-3.7/layer5/TestPyMOL.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'int ExecutiveSetObjSettingFromString(PyMOLGlobals*, int, const char*, CObject*, int, int, int)': layer3/Executive.cpp:12888:19: warning: '%s' directive output may be truncated writing up to 254 bytes into a region of size 245 [-Wformat-truncation=] " Setting: %s set to %s in object \"%s\", state %d.\n", @@ -7665,30 +7435,42 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/PlugIOManager.cpp -o build/temp.linux-amd64-3.7/layer3/PlugIOManager.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectVolume.cpp: In function 'void ObjectVolumeUpdate(ObjectVolume*)': -layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] - "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/ObjectVolume.cpp -o build/temp.linux-amd64-3.7/layer2/ObjectVolume.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/RepWireBond.cpp -o build/temp.linux-amd64-3.7/layer2/RepWireBond.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectMolecule.cpp: In function 'const char* findflag(PyMOLGlobals*, const char*, const char*, const char*)': +layer2/ObjectMolecule.cpp:1525:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 194 [-Wformat-truncation=] + " ObjectMolecule-Error: Unrecognized file format (can't find \"%s\").\n", pat + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectVolume.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + from layer2/ObjectMolecule.cpp:16: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 66 and 1089 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/COLLADA.cpp -o build/temp.linux-amd64-3.7/layer1/COLLADA.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -layer2/ObjectVolume.cpp: In function 'void ObjectVolumeRender(ObjectVolume*, RenderInfo*)': -layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] - "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectMolecule.cpp:1543:9: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 194 [-Wformat-truncation=] + " ObjectMolecule-Error: Unrecognized file format (can't find \"%s\").\n", pat + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectVolume.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + from layer2/ObjectMolecule.cpp:16: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 66 and 1089 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectMolecule.cpp: In function 'CoordSet* ObjectMoleculeMOLStr2CoordSet(PyMOLGlobals*, const char*, AtomInfoType**, const char**)': +layer2/ObjectMolecule.cpp:8024:5: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 224 [-Wformat-truncation=] + " ObjMolMOLStr2CoordSet: title '%s'\n", nameTmp ENDFB(G) + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python3.7m/Python.h:25, + from layer0/os_python.h:34, + from layer2/ObjectMolecule.cpp:16: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 34 and 289 bytes into a destination of size 255 return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); @@ -7708,8 +7490,6 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/Sculpt.cpp -o build/temp.linux-amd64-3.7/layer2/Sculpt.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer5/main.cpp -o build/temp.linux-amd64-3.7/layer5/main.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/PlugIOManager.cpp: In function 'CObject* PlugIOManagerLoad(PyMOLGlobals*, CObject**, const char*, int, int, const char*)': layer3/PlugIOManager.cpp:859:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 200 [-Wformat-truncation=] " PlugIOManagerLoad: can't load trajectory into object '%s'\n", obj->Name ENDFB(G); @@ -7723,19 +7503,208 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectMolecule.cpp: In function 'void ObjectMoleculeUpdate(ObjectMolecule*)': -layer2/ObjectMolecule.cpp:11293:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size between 181 and 191 [-Wformat-truncation=] - " ObjectMolecule-DEBUG: updating representations for state %d of \"%s\".\n", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python3.7m/Python.h:25, - from layer0/os_python.h:34, - from layer2/ObjectMolecule.cpp:16: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 68 and 333 bytes into a destination of size 255 - return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp: In function 'int SceneClick(Block*, int, int, int, int, double)': +layer1/Scene.cpp:4103:22: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] + PRINTF " You clicked %s", buffer ENDF(G); + ^~~~~~~~~~~~~~~~~ ~~~~~~ +In file included from layer1/Ortho.h:30, + from layer1/Scene.h:23, + from layer1/Scene.cpp:32: +layer0/Feedback.h:265:53: note: 'snprintf' output between 14 and 1037 bytes into a destination of size 255 + #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, + ^ +layer1/Scene.cpp:4103:15: note: in expansion of macro 'PRINTF' + PRINTF " You clicked %s", buffer ENDF(G); + ^~~~~~ +layer1/Scene.cpp:3971:20: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] + PRINTF " You clicked %s -> (%s)", buffer, cEditorSele1 ENDF(G); + ^~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ +In file included from layer1/Ortho.h:30, + from layer1/Scene.h:23, + from layer1/Scene.cpp:32: +layer0/Feedback.h:265:53: note: 'snprintf' output between 23 and 1046 bytes into a destination of size 255 + #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, + ^ +layer1/Scene.cpp:3971:13: note: in expansion of macro 'PRINTF' + PRINTF " You clicked %s -> (%s)", buffer, cEditorSele1 ENDF(G); + ^~~~~~ +layer1/Scene.cpp:3988:22: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] + PRINTF " You clicked %s -> (%s)", buffer, cEditorSele2 ENDF(G); + ^~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ +In file included from layer1/Ortho.h:30, + from layer1/Scene.h:23, + from layer1/Scene.cpp:32: +layer0/Feedback.h:265:53: note: 'snprintf' output between 23 and 1046 bytes into a destination of size 255 + #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, + ^ +layer1/Scene.cpp:3988:15: note: in expansion of macro 'PRINTF' + PRINTF " You clicked %s -> (%s)", buffer, cEditorSele2 ENDF(G); + ^~~~~~ +layer1/Scene.cpp:3996:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1014 [-Wformat-overflow=] + sprintf(buffer, "cmd.edit(\"%s\",\"%s\")", buf1, buf2); + ^~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ +layer1/Scene.cpp:3996:22: note: 'sprintf' output between 16 and 2062 bytes into a destination of size 1024 + sprintf(buffer, "cmd.edit(\"%s\",\"%s\")", buf1, buf2); + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp:3856:24: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] + PRINTF " You clicked %s -> (%s)\n", buffer, cEditorSele1 ENDF(G); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ +In file included from layer1/Ortho.h:30, + from layer1/Scene.h:23, + from layer1/Scene.cpp:32: +layer0/Feedback.h:265:53: note: 'snprintf' output between 24 and 1047 bytes into a destination of size 255 + #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, + ^ +layer1/Scene.cpp:3856:17: note: in expansion of macro 'PRINTF' + PRINTF " You clicked %s -> (%s)\n", buffer, cEditorSele1 ENDF(G); + ^~~~~~ +layer1/Scene.cpp:3862:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1014 [-Wformat-overflow=] + sprintf(buf2, "cmd.edit(\"%s\",pkresi=1)", buffer); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ +layer1/Scene.cpp:3862:24: note: 'sprintf' output between 22 and 1045 bytes into a destination of size 1024 + sprintf(buf2, "cmd.edit(\"%s\",pkresi=1)", buffer); + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp:3891:24: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 241 [-Wformat-truncation=] + PRINTF " You unpicked %s.", buffer ENDF(G); + ^~~~~~~~~~~~~~~~~~~ ~~~~~~ +In file included from layer1/Ortho.h:30, + from layer1/Scene.h:23, + from layer1/Scene.cpp:32: +layer0/Feedback.h:265:53: note: 'snprintf' output between 16 and 1039 bytes into a destination of size 255 + #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, + ^ +layer1/Scene.cpp:3891:17: note: in expansion of macro 'PRINTF' + PRINTF " You unpicked %s.", buffer ENDF(G); + ^~~~~~ +layer1/Scene.cpp:3904:50: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] + PRINTFB(G, FB_Scene, FB_Results) " You clicked %s -> (%s)\n", buffer, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~ +In file included from layer1/Ortho.h:30, + from layer1/Scene.h:23, + from layer1/Scene.cpp:32: +layer0/Feedback.h:262:98: note: 'snprintf' output between 21 and 1299 bytes into a destination of size 255 + #define PRINTFB(G,sysmod,mask) { FeedbackLineType _FBstr; if(Feedback(G,sysmod,mask)) {(snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, + ^ +layer1/Scene.cpp:3904:17: note: in expansion of macro 'PRINTFB' + PRINTFB(G, FB_Scene, FB_Results) " You clicked %s -> (%s)\n", buffer, + ^~~~~~~ +layer1/Scene.cpp:4162:20: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] + PRINTF " You clicked %s", buffer ENDF(G); + ^~~~~~~~~~~~~~~~~ ~~~~~~ +In file included from layer1/Ortho.h:30, + from layer1/Scene.h:23, + from layer1/Scene.cpp:32: +layer0/Feedback.h:265:53: note: 'snprintf' output between 14 and 1037 bytes into a destination of size 255 + #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, + ^ +layer1/Scene.cpp:4162:13: note: in expansion of macro 'PRINTF' + PRINTF " You clicked %s", buffer ENDF(G); + ^~~~~~ +layer1/Scene.cpp:4196:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=] + sprintf(buffer, "cmd.drag(\"byobject (%s)\")", buf1); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ +layer1/Scene.cpp:4196:22: note: 'sprintf' output between 24 and 1047 bytes into a destination of size 1024 + sprintf(buffer, "cmd.drag(\"byobject (%s)\")", buf1); + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp:4187:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1007 [-Wformat-overflow=] + sprintf(buffer, "cmd.drag(\"bymol (%s)\")", buf1); + ^~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ +layer1/Scene.cpp:4187:22: note: 'sprintf' output between 21 and 1044 bytes into a destination of size 1024 + sprintf(buffer, "cmd.drag(\"bymol (%s)\")", buf1); + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp:4247:31: warning: '%s' directive writing up to 1023 bytes into a region of size 1012 [-Wformat-overflow=] + sprintf(buffer, "cmd.center(\"%s\",state=%d)", buf1, I->LastPicked.context.state + 1); + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~ +layer1/Scene.cpp:4247:31: note: directive argument in the range [-2147483647, 2147483647] +layer1/Scene.cpp:4247:22: note: 'sprintf' output between 23 and 1056 bytes into a destination of size 1024 + sprintf(buffer, "cmd.center(\"%s\",state=%d)", buf1, I->LastPicked.context.state + 1); + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp:4218:33: warning: '%s' directive writing up to 1023 bytes into a region of size 1012 [-Wformat-overflow=] + sprintf(buffer, "cmd.origin(\"%s\")", buf1); + ^~~~~~~~~~~~~~~~~~~~ ~~~~ +layer1/Scene.cpp:4218:24: note: 'sprintf' output between 15 and 1038 bytes into a destination of size 1024 + sprintf(buffer, "cmd.origin(\"%s\")", buf1); + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp:4225:24: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 242 [-Wformat-truncation=] + PRINTF " You clicked %s", buffer ENDF(G); + ^~~~~~~~~~~~~~~~~ ~~~~~~ +In file included from layer1/Ortho.h:30, + from layer1/Scene.h:23, + from layer1/Scene.cpp:32: +layer0/Feedback.h:265:53: note: 'snprintf' output between 14 and 1037 bytes into a destination of size 255 + #define PRINTF { FeedbackLineType _FBstr; (snprintf)( _FBstr, FEEDBACK_MAX_OUTPUT, + ^ +layer1/Scene.cpp:4225:17: note: in expansion of macro 'PRINTF' + PRINTF " You clicked %s", buffer ENDF(G); + ^~~~~~ +layer1/Scene.cpp:4312:29: warning: ')' directive writing 1 byte into a region of size between 0 and 1023 [-Wformat-overflow=] + sprintf(buf2, "%s(%s)", sel_mode_kw, buffer); + ^~~~~~~~ +layer1/Scene.cpp:4312:22: note: 'sprintf' output 3 or more bytes (assuming 1026) into a destination of size 1024 + sprintf(buf2, "%s(%s)", sel_mode_kw, buffer); + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp:4319:35: warning: '%s' directive writing up to 1023 bytes into a region of size between 753 and 1008 [-Wformat-overflow=] + sprintf(buffer, "cmd.select('%s',\"%s(%s)\")", selName, sel_mode_kw, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + buf1); + ~~~~ +layer1/Scene.cpp:4319:26: note: 'sprintf' output 20 or more bytes (assuming 1298) into a destination of size 1024 + sprintf(buffer, "cmd.select('%s',\"%s(%s)\")", selName, sel_mode_kw, + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + buf1); + ~~~~~ +layer1/Scene.cpp:4294:29: warning: '%s' directive writing up to 1023 bytes into a region of size between 760 and 1015 [-Wformat-overflow=] + sprintf(buf2, "(((%s) or %s(%s)) and not ((%s(%s)) and %s(%s)))", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + selName, sel_mode_kw, buffer, sel_mode_kw, buffer, sel_mode_kw, + ~~~~~~ +layer1/Scene.cpp:4294:22: note: 'sprintf' output 35 or more bytes (assuming 2591) into a destination of size 1024 + sprintf(buf2, "(((%s) or %s(%s)) and not ((%s(%s)) and %s(%s)))", + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + selName, sel_mode_kw, buffer, sel_mode_kw, buffer, sel_mode_kw, + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + selName); + ~~~~~~~~ +layer1/Scene.cpp:4303:33: warning: '%s' directive writing up to 1023 bytes into a region of size between 760 and 1015 [-Wformat-overflow=] + sprintf(buf2, "(((%s) or %s(%s)) and not ((%s(%s)) and %s(%s)))", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + selName, sel_mode_kw, buffer, sel_mode_kw, buffer, sel_mode_kw, + ~~~~~~ +layer1/Scene.cpp:4303:26: note: 'sprintf' output 35 or more bytes (assuming 2591) into a destination of size 1024 + sprintf(buf2, "(((%s) or %s(%s)) and not ((%s(%s)) and %s(%s)))", + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + selName, sel_mode_kw, buffer, sel_mode_kw, buffer, sel_mode_kw, + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + selName); + ~~~~~~~~ +layer1/Scene.cpp:4306:35: warning: '%s' directive writing up to 1023 bytes into a region of size between 753 and 1008 [-Wformat-overflow=] + sprintf(buffer, "cmd.select('%s',\"%s(%s)\",enable=1)", selName, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + sel_mode_kw, buf2); + ~~~~ +layer1/Scene.cpp:4306:26: note: 'sprintf' output 29 or more bytes (assuming 1307) into a destination of size 1024 + sprintf(buffer, "cmd.select('%s',\"%s(%s)\",enable=1)", selName, + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + sel_mode_kw, buf2); + ~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp:4271:27: warning: '%s' directive writing up to 1023 bytes into a region of size 1022 [-Wformat-overflow=] + sprintf(buf2, "(%s(%s))", sel_mode_kw, buffer); + ^~~~~~~~~~ ~~~~~~ +layer1/Scene.cpp:4271:20: note: 'sprintf' output 5 or more bytes (assuming 1028) into a destination of size 1024 + sprintf(buf2, "(%s(%s))", sel_mode_kw, buffer); + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer1/Scene.cpp:4282:33: warning: '%s' directive writing up to 1023 bytes into a region of size between 753 and 1008 [-Wformat-overflow=] + sprintf(buffer, "cmd.select('%s',\"%s(%s)\",enable=1)", selName, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + sel_mode_kw, buf1); + ~~~~ +layer1/Scene.cpp:4282:24: note: 'sprintf' output 29 or more bytes (assuming 1307) into a destination of size 1024 + sprintf(buffer, "cmd.select('%s',\"%s(%s)\",enable=1)", selName, + ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + sel_mode_kw, buf1); + ~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/Seeker.cpp -o build/temp.linux-amd64-3.7/layer3/Seeker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer4/Export.cpp -o build/temp.linux-amd64-3.7/layer4/Export.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'void ExecutiveManageObject(PyMOLGlobals*, CObject*, int, int)': layer3/Executive.cpp:15045:13: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=] " Executive: object \"%s\" created.\n", obj->Name ENDFB(G); @@ -7773,6 +7742,19 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectVolume.cpp: In function 'ObjectMapState* ObjectVolumeGetMapState(ObjectVolume*)': +layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] + "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python3.7m/Python.h:25, + from layer0/os_python.h:34, + from layer2/ObjectVolume.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveGroup(PyMOLGlobals*, const char*, const char*, int, int)': layer3/Executive.cpp:2302:19: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 235 [-Wformat-truncation=] " Executive: adding '%s' to group '%s'.\n", rec->name, rec->group_name @@ -7786,22 +7768,19 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer2/ObjectMolecule.cpp: In function 'int ObjectMoleculeMoveAtom(ObjectMolecule*, int, int, float*, int, int)': -layer2/ObjectMolecule.cpp:11416:21: warning: '%s' directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=] - sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n", - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - buffer, v[0], v[1], v[2], state + 1, mode, 0); - ~~~~~~ -layer2/ObjectMolecule.cpp:11416:21: note: directive argument in the range [-2147483647, 2147483647] +layer2/ObjectVolume.cpp: In function 'CField* ObjectVolumeGetField(ObjectVolume*)': +layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] + "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer2/ObjectMolecule.cpp:16: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 78 and 2036 bytes into a destination of size 1024 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + from layer2/ObjectVolume.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveSetName(PyMOLGlobals*, const char*, const char*)': layer3/Executive.cpp:3561:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 234 [-Wformat-truncation=] "SetName-Error: name '%s' is a selection keyword.\n", name ENDFB(G); @@ -7815,7 +7794,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/Seeker.cpp -o build/temp.linux-amd64-3.7/layer3/Seeker.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/COLLADA.cpp -o build/temp.linux-amd64-3.7/layer1/COLLADA.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'int ExecutiveSetSession(PyMOLGlobals*, PyObject*, int, int)': layer3/Executive.cpp:5217:13: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 213 [-Wformat-truncation=] " Executive: skipping unrecognized object \"%s\" of type %d.\n", @@ -7841,6 +7820,19 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer2/ObjectVolume.cpp: In function 'void ObjectVolumeUpdate(ObjectVolume*)': +layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] + "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python3.7m/Python.h:25, + from layer0/os_python.h:34, + from layer2/ObjectVolume.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'void ExecutiveSelectRect(PyMOLGlobals*, BlockRect*, int)': layer3/Executive.cpp:7616:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 751 and 1008 [-Wformat-overflow=] sprintf(buf2, "%scmd.select(\"%s\",\"(%s)\",enable=1)\n", prefix, selName, @@ -7870,7 +7862,20 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Character.cpp -o build/temp.linux-amd64-3.7/layer1/Character.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectVolume.cpp: In function 'void ObjectVolumeRender(ObjectVolume*, RenderInfo*)': +layer2/ObjectVolume.cpp:76:7: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 230 [-Wformat-truncation=] + "ObjectVolume-Error: map '%s' has been deleted.\n", vs->MapName + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python3.7m/Python.h:25, + from layer0/os_python.h:34, + from layer2/ObjectVolume.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 46 and 301 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer5/main.cpp -o build/temp.linux-amd64-3.7/layer5/main.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'void ExecutiveCopy(PyMOLGlobals*, const char*, const char*, int)': layer3/Executive.cpp:10398:9: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 236 [-Wformat-truncation=] " Executive: object %s created.\n", oDst->Obj.Name ENDFB(G); @@ -7884,10 +7889,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer5/main.cpp: In function 'void launch(CPyMOLOptions*, int)': -layer5/main.cpp:1480:31: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] - char *myArgv[8] = {"pymol"}; - ^ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/Sculpt.cpp -o build/temp.linux-amd64-3.7/layer2/Sculpt.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'void ExecutiveSymExp(PyMOLGlobals*, const char*, const char*, const char*, float, int, int)': layer3/Executive.cpp:14715:21: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 238 [-Wformat-truncation=] "new_name before: %s\n", new_name ENDFB(G); @@ -7919,8 +7921,36 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer4/Export.cpp -o build/temp.linux-amd64-3.7/layer4/Export.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c modules/cealign/src/ccealignmodule.cpp -o build/temp.linux-amd64-3.7/modules/cealign/src/ccealignmodule.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer3/Seeker.cpp: In function 'void SeekerSelectionToggleRange(PyMOLGlobals*, CSeqRow*, int, int, int, int, int)': +layer3/Seeker.cpp:148:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 752 and 1009 [-Wformat-overflow=] + sprintf(buf2, "%scmd.select(\"%s\",\"%s\",enable=1)\n", prefix, selName, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + buf1); + ~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python3.7m/Python.h:25, + from layer0/os_python.h:34, + from layer3/Seeker.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 28 and 1308 bytes into a destination of size 1024 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +layer3/Seeker.cpp: In function 'void SeekerSelectionToggle(PyMOLGlobals*, CSeqRow*, int, int, int, int)': +layer3/Seeker.cpp:232:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 752 and 1009 [-Wformat-overflow=] + sprintf(buf2, "%scmd.select(\"%s\",\"%s\",enable=1)\n", prefix, selName, + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + buf1); + ~~~~ +In file included from /usr/include/stdio.h:873, + from /usr/include/python3.7m/Python.h:25, + from layer0/os_python.h:34, + from layer3/Seeker.cpp:20: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 28 and 1308 bytes into a destination of size 1024 + return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ layer3/Executive.cpp: In function 'int ExecutiveProcessPDBFile(PyMOLGlobals*, CObject*, const char*, const char*, const char*, int, int, int, char*, int, int, int, int)': layer3/Executive.cpp:4238:35: warning: '%04d' directive writing between 4 and 10 bytes into a region of size between 0 and 255 [-Wformat-overflow=] sprintf(pdb_name, "%s_%04d", cur_name, n_processed + 1); @@ -8012,21 +8042,7 @@ ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer3/Seeker.cpp: In function 'void SeekerSelectionToggleRange(PyMOLGlobals*, CSeqRow*, int, int, int, int, int)': -layer3/Seeker.cpp:148:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 752 and 1009 [-Wformat-overflow=] - sprintf(buf2, "%scmd.select(\"%s\",\"%s\",enable=1)\n", prefix, selName, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - buf1); - ~~~~ -In file included from /usr/include/stdio.h:873, - from /usr/include/python3.7m/Python.h:25, - from layer0/os_python.h:34, - from layer3/Seeker.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 28 and 1308 bytes into a destination of size 1024 - return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, - ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - __bos (__s), __fmt, __va_arg_pack ()); - ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer4/Menu.cpp -o build/temp.linux-amd64-3.7/layer4/Menu.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Executive.cpp: In function 'int ExecutiveLoad(PyMOLGlobals*, const char*, int, int, const char*, int, int, int, int, int, int, const char*, const char*, const char*, bool)': layer3/Executive.cpp:3989:7: warning: '%s' directive output may be truncated writing up to 1023 bytes into a region of size 255 [-Wformat-truncation=] "%s", buf ENDFB(G); @@ -8040,27 +8056,46 @@ ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -layer3/Seeker.cpp: In function 'void SeekerSelectionToggle(PyMOLGlobals*, CSeqRow*, int, int, int, int)': -layer3/Seeker.cpp:232:27: warning: '%s' directive writing up to 1023 bytes into a region of size between 752 and 1009 [-Wformat-overflow=] - sprintf(buf2, "%scmd.select(\"%s\",\"%s\",enable=1)\n", prefix, selName, - ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - buf1); - ~~~~ +layer5/main.cpp: In function 'void launch(CPyMOLOptions*, int)': +layer5/main.cpp:1480:31: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] + char *myArgv[8] = {"pymol"}; + ^ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer1/Character.cpp -o build/temp.linux-amd64-3.7/layer1/Character.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/Selector.cpp -o build/temp.linux-amd64-3.7/layer3/Selector.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer4/PopUp.cpp -o build/temp.linux-amd64-3.7/layer4/PopUp.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectMolecule.cpp: In function 'void ObjectMoleculeUpdate(ObjectMolecule*)': +layer2/ObjectMolecule.cpp:11293:15: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size between 181 and 191 [-Wformat-truncation=] + " ObjectMolecule-DEBUG: updating representations for state %d of \"%s\".\n", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/python3.7m/Python.h:25, from layer0/os_python.h:34, - from layer3/Seeker.cpp:20: -/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 28 and 1308 bytes into a destination of size 1024 + from layer2/ObjectMolecule.cpp:16: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 68 and 333 bytes into a destination of size 255 + return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + __bos (__s), __fmt, __va_arg_pack ()); + ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c modules/cealign/src/ccealignmodule.cpp -o build/temp.linux-amd64-3.7/modules/cealign/src/ccealignmodule.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +layer2/ObjectMolecule.cpp: In function 'int ObjectMoleculeMoveAtom(ObjectMolecule*, int, int, float*, int, int)': +layer2/ObjectMolecule.cpp:11416:21: warning: '%s' directive writing up to 1023 bytes into a region of size 1004 [-Wformat-overflow=] + sprintf(line, "cmd.translate_atom(\"%s\",%15.9f,%15.9f,%15.9f,%d,%d,%d)\n", + ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + buffer, v[0], v[1], v[2], state + 1, mode, 0); + ~~~~~~ +layer2/ObjectMolecule.cpp:11416:21: note: directive argument in the range [-2147483647, 2147483647] +In file included from /usr/include/stdio.h:873, + from /usr/include/python3.7m/Python.h:25, + from layer0/os_python.h:34, + from layer2/ObjectMolecule.cpp:16: +/usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 78 and 2036 bytes into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer4/Menu.cpp -o build/temp.linux-amd64-3.7/layer4/Menu.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/SculptCache.cpp -o build/temp.linux-amd64-3.7/layer2/SculptCache.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/MaeExportHelpers.cpp -o build/temp.linux-amd64-3.7/layer3/MaeExportHelpers.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/Selector.cpp -o build/temp.linux-amd64-3.7/layer3/Selector.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon -x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer4/PopUp.cpp -o build/temp.linux-amd64-3.7/layer4/PopUp.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer3/MoleculeExporter.cpp -o build/temp.linux-amd64-3.7/layer3/MoleculeExporter.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon +x86_64-linux-gnu-g++ -pthread -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_VMD_PLUGINS -D_HAVE_LIBXML -D_PYMOL_NO_MSGPACKC -D_PYMOL_FREETYPE -DNO_MMLIBS -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include -I/usr/include/freetype2 -I/usr/include/libxml2 -I/usr/include/python3.7m -c layer2/SculptCache.cpp -o build/temp.linux-amd64-3.7/layer2/SculptCache.o -Wno-narrowing -Wno-unused-function -Wno-char-subscripts -ffast-math -funroll-loops -O3 -fcommon layer3/Selector.cpp: In function 'int SelectorAssignSS(PyMOLGlobals*, int, int, int, int, ObjectMolecule*, int)': layer3/Selector.cpp:2036:21: warning: '%s' directive output may be truncated writing up to 255 bytes into a region of size 207 [-Wformat-truncation=] " AssignSS-Warning: Ignoring incomplete residue /%s/%s/%s/%d%c ...\n", @@ -8140,16 +8175,16 @@ x86_64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-amd64-3.7/build/generated/ShaderText.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/abinitplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/inthash.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/molemeshplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/offplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pdbxplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/plyplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vasp5xdatcarplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/vtkplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o build/temp.linux-amd64-3.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o build/temp.linux-amd64-3.7/layer0/Block.o build/temp.linux-amd64-3.7/layer0/Crystal.o build/temp.linux-amd64-3.7/layer0/Debug.o build/temp.linux-amd64-3.7/layer0/Deferred.o build/temp.linux-amd64-3.7/layer0/Err.o build/temp.linux-amd64-3.7/layer0/Feedback.o build/temp.linux-amd64-3.7/layer0/Field.o build/temp.linux-amd64-3.7/layer0/File.o build/temp.linux-amd64-3.7/layer0/GenericBuffer.o build/temp.linux-amd64-3.7/layer0/GraphicsUtil.o build/temp.linux-amd64-3.7/layer0/Isosurf.o build/temp.linux-amd64-3.7/layer0/Map.o build/temp.linux-amd64-3.7/layer0/Match.o build/temp.linux-amd64-3.7/layer0/Matrix.o build/temp.linux-amd64-3.7/layer0/MemoryCache.o build/temp.linux-amd64-3.7/layer0/MemoryDebug.o build/temp.linux-amd64-3.7/layer0/MyPNG.o build/temp.linux-amd64-3.7/layer0/Parse.o build/temp.linux-amd64-3.7/layer0/Pixmap.o build/temp.linux-amd64-3.7/layer0/Queue.o build/temp.linux-amd64-3.7/layer0/ShaderMgr.o build/temp.linux-amd64-3.7/layer0/ShaderPrg.o build/temp.linux-amd64-3.7/layer0/Sphere.o build/temp.linux-amd64-3.7/layer0/Tetsurf.o build/temp.linux-amd64-3.7/layer0/Texture.o build/temp.linux-amd64-3.7/layer0/Tracker.o build/temp.linux-amd64-3.7/layer0/Triangle.o build/temp.linux-amd64-3.7/layer0/Util.o build/temp.linux-amd64-3.7/layer0/Util2.o build/temp.linux-amd64-3.7/layer0/Vector.o build/temp.linux-amd64-3.7/layer0/Word.o build/temp.linux-amd64-3.7/layer0/os_gl.o build/temp.linux-amd64-3.7/layer1/Basis.o build/temp.linux-amd64-3.7/layer1/ButMode.o build/temp.linux-amd64-3.7/layer1/CGO.o build/temp.linux-amd64-3.7/layer1/COLLADA.o build/temp.linux-amd64-3.7/layer1/Character.o build/temp.linux-amd64-3.7/layer1/Color.o build/temp.linux-amd64-3.7/layer1/Control.o build/temp.linux-amd64-3.7/layer1/Extrude.o build/temp.linux-amd64-3.7/layer1/Font.o build/temp.linux-amd64-3.7/layer1/FontGLUT.o build/temp.linux-amd64-3.7/layer1/FontGLUT8x13.o build/temp.linux-amd64-3.7/layer1/FontGLUT9x15.o build/temp.linux-amd64-3.7/layer1/FontGLUTHel10.o build/temp.linux-amd64-3.7/layer1/FontGLUTHel12.o build/temp.linux-amd64-3.7/layer1/FontGLUTHel18.o build/temp.linux-amd64-3.7/layer1/FontType.o build/temp.linux-amd64-3.7/layer1/Movie.o build/temp.linux-amd64-3.7/layer1/Ortho.o build/temp.linux-amd64-3.7/layer1/P.o build/temp.linux-amd64-3.7/layer1/PConv.o build/temp.linux-amd64-3.7/layer1/Pop.o build/temp.linux-amd64-3.7/layer1/PyMOLObject.o build/temp.linux-amd64-3.7/layer1/Ray.o build/temp.linux-amd64-3.7/layer1/Rep.o build/temp.linux-amd64-3.7/layer1/Scene.o build/temp.linux-amd64-3.7/layer1/ScenePicking.o build/temp.linux-amd64-3.7/layer1/SceneRay.o build/temp.linux-amd64-3.7/layer1/SceneRender.o build/temp.linux-amd64-3.7/layer1/ScrollBar.o build/temp.linux-amd64-3.7/layer1/Seq.o build/temp.linux-amd64-3.7/layer1/Setting.o build/temp.linux-amd64-3.7/layer1/Shaker.o build/temp.linux-amd64-3.7/layer1/Symmetry.o build/temp.linux-amd64-3.7/layer1/Text.o build/temp.linux-amd64-3.7/layer1/TypeFace.o build/temp.linux-amd64-3.7/layer1/View.o build/temp.linux-amd64-3.7/layer1/Wizard.o build/temp.linux-amd64-3.7/layer2/AssemblyHelpers.o build/temp.linux-amd64-3.7/layer2/AtomInfo.o build/temp.linux-amd64-3.7/layer2/AtomInfoHistory.o build/temp.linux-amd64-3.7/layer2/BondTypeHistory.o build/temp.linux-amd64-3.7/layer2/CifFile.o build/temp.linux-amd64-3.7/layer2/CifMoleculeReader.o build/temp.linux-amd64-3.7/layer2/CoordSet.o build/temp.linux-amd64-3.7/layer2/DistSet.o build/temp.linux-amd64-3.7/layer2/GadgetSet.o build/temp.linux-amd64-3.7/layer2/HydrogenAdder.o build/temp.linux-amd64-3.7/layer2/MmodTyping.o build/temp.linux-amd64-3.7/layer2/MmtfMoleculeReader.o build/temp.linux-amd64-3.7/layer2/Mol2Typing.o build/temp.linux-amd64-3.7/layer2/MolV3000.o build/temp.linux-amd64-3.7/layer2/ObjectAlignment.o build/temp.linux-amd64-3.7/layer2/ObjectCGO.o build/temp.linux-amd64-3.7/layer2/ObjectCallback.o build/temp.linux-amd64-3.7/layer2/ObjectDist.o build/temp.linux-amd64-3.7/layer2/ObjectGadget.o build/temp.linux-amd64-3.7/layer2/ObjectGadgetRamp.o build/temp.linux-amd64-3.7/layer2/ObjectGroup.o build/temp.linux-amd64-3.7/layer2/ObjectMap.o build/temp.linux-amd64-3.7/layer2/ObjectMesh.o build/temp.linux-amd64-3.7/layer2/ObjectMolecule.o build/temp.linux-amd64-3.7/layer2/ObjectMolecule2.o build/temp.linux-amd64-3.7/layer2/ObjectSlice.o build/temp.linux-amd64-3.7/layer2/ObjectSurface.o build/temp.linux-amd64-3.7/layer2/ObjectVolume.o build/temp.linux-amd64-3.7/layer2/RepAngle.o build/temp.linux-amd64-3.7/layer2/RepCartoon.o build/temp.linux-amd64-3.7/layer2/RepCylBond.o build/temp.linux-amd64-3.7/layer2/RepDihedral.o build/temp.linux-amd64-3.7/layer2/RepDistDash.o build/temp.linux-amd64-3.7/layer2/RepDistLabel.o build/temp.linux-amd64-3.7/layer2/RepDot.o build/temp.linux-amd64-3.7/layer2/RepEllipsoid.o build/temp.linux-amd64-3.7/layer2/RepLabel.o build/temp.linux-amd64-3.7/layer2/RepMesh.o build/temp.linux-amd64-3.7/layer2/RepNonbonded.o build/temp.linux-amd64-3.7/layer2/RepNonbondedSphere.o build/temp.linux-amd64-3.7/layer2/RepRibbon.o build/temp.linux-amd64-3.7/layer2/RepSphere.o build/temp.linux-amd64-3.7/layer2/RepSphereGenerate.o build/temp.linux-amd64-3.7/layer2/RepSphereImmediate.o build/temp.linux-amd64-3.7/layer2/RepSurface.o build/temp.linux-amd64-3.7/layer2/RepWireBond.o build/temp.linux-amd64-3.7/layer2/Sculpt.o build/temp.linux-amd64-3.7/layer2/SculptCache.o build/temp.linux-amd64-3.7/layer2/SideChainHelper.o build/temp.linux-amd64-3.7/layer2/VFont.o build/temp.linux-amd64-3.7/layer3/AtomIterators.o build/temp.linux-amd64-3.7/layer3/CifDataValueFormatter.o build/temp.linux-amd64-3.7/layer3/Editor.o build/temp.linux-amd64-3.7/layer3/Executive.o build/temp.linux-amd64-3.7/layer3/MaeExportHelpers.o build/temp.linux-amd64-3.7/layer3/MoleculeExporter.o build/temp.linux-amd64-3.7/layer3/MovieScene.o build/temp.linux-amd64-3.7/layer3/PlugIOManager.o build/temp.linux-amd64-3.7/layer3/Seeker.o build/temp.linux-amd64-3.7/layer3/Selector.o build/temp.linux-amd64-3.7/layer4/Cmd.o build/temp.linux-amd64-3.7/layer4/Export.o build/temp.linux-amd64-3.7/layer4/Menu.o build/temp.linux-amd64-3.7/layer4/PopUp.o build/temp.linux-amd64-3.7/layer5/PyMOL.o build/temp.linux-amd64-3.7/layer5/TestPyMOL.o build/temp.linux-amd64-3.7/layer5/main.o build/temp.linux-amd64-3.7/modules/cealign/src/ccealignmodule.o build/temp.linux-amd64-3.7/ov/src/OVContext.o build/temp.linux-amd64-3.7/ov/src/OVHeap.o build/temp.linux-amd64-3.7/ov/src/OVHeapArray.o build/temp.linux-amd64-3.7/ov/src/OVLexicon.o build/temp.linux-amd64-3.7/ov/src/OVOneToAny.o build/temp.linux-amd64-3.7/ov/src/OVOneToOne.o build/temp.linux-amd64-3.7/ov/src/OVRandom.o build/temp.linux-amd64-3.7/ov/src/ov_utility.o -lxml2 -lpng -lfreetype -lGLEW -lGL -lglut -o /build/pymol-2.2.0+dfsg/.pybuild/cpython3_3.7_pymol/build/pymol/_cmd.cpython-37m-x86_64-linux-gnu.so building 'chempy.champ._champ' extension creating build/temp.linux-amd64-3.7/contrib/champ -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/champ.c -o build/temp.linux-amd64-3.7/contrib/champ/champ.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/champ_module.c -o build/temp.linux-amd64-3.7/contrib/champ/champ_module.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/chiral.c -o build/temp.linux-amd64-3.7/contrib/champ/chiral.o -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/err2.c -o build/temp.linux-amd64-3.7/contrib/champ/err2.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/feedback2.c -o build/temp.linux-amd64-3.7/contrib/champ/feedback2.o -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/os_memory.c -o build/temp.linux-amd64-3.7/contrib/champ/os_memory.o -x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/sort.c -o build/temp.linux-amd64-3.7/contrib/champ/sort.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/list.c -o build/temp.linux-amd64-3.7/contrib/champ/list.o +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/err2.c -o build/temp.linux-amd64-3.7/contrib/champ/err2.o +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/champ.c -o build/temp.linux-amd64-3.7/contrib/champ/champ.o +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/os_memory.c -o build/temp.linux-amd64-3.7/contrib/champ/os_memory.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/strblock.c -o build/temp.linux-amd64-3.7/contrib/champ/strblock.o x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/vla.c -o build/temp.linux-amd64-3.7/contrib/champ/vla.o +x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icontrib/champ -I/usr/include/python3.7m -c contrib/champ/sort.c -o build/temp.linux-amd64-3.7/contrib/champ/sort.o contrib/champ/os_memory.c: In function 'OSMemoryZero': contrib/champ/os_memory.c:67:18: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] while(count&&(((int)p)&mask)) { @@ -8162,13 +8197,6 @@ contrib/champ/os_memory.c:162:8: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] hash=(int)rec; ^ -contrib/champ/champ.c: In function 'PConvPyObjectToStrMaxClean': -contrib/champ/champ.c:1250:8: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] - st = PyString_AsString(object); - ^ -contrib/champ/champ.c:1255:10: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] - st = PyString_AsString(tmp); - ^ In file included from contrib/champ/champ_module.c:16: contrib/champ/champ_module.c: In function 'list_prepend_pattern_strings': contrib/champ/os_python.h:34:41: warning: passing argument 2 of 'ChampSmiToPat' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] @@ -8180,6 +8208,13 @@ contrib/champ/champ.h:285:35: note: expected 'char *' but argument is of type 'const char *' int ChampSmiToPat(CChamp *I,char *c); ~~~~~~^ +contrib/champ/champ.c: In function 'PConvPyObjectToStrMaxClean': +contrib/champ/champ.c:1250:8: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] + st = PyString_AsString(object); + ^ +contrib/champ/champ.c:1255:10: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] + st = PyString_AsString(tmp); + ^ x86_64-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pymol-2.2.0+dfsg=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-amd64-3.7/contrib/champ/champ.o build/temp.linux-amd64-3.7/contrib/champ/champ_module.o build/temp.linux-amd64-3.7/contrib/champ/chiral.o build/temp.linux-amd64-3.7/contrib/champ/err2.o build/temp.linux-amd64-3.7/contrib/champ/feedback2.o build/temp.linux-amd64-3.7/contrib/champ/list.o build/temp.linux-amd64-3.7/contrib/champ/os_memory.o build/temp.linux-amd64-3.7/contrib/champ/sort.o build/temp.linux-amd64-3.7/contrib/champ/strblock.o build/temp.linux-amd64-3.7/contrib/champ/vla.o -o /build/pymol-2.2.0+dfsg/.pybuild/cpython3_3.7_pymol/build/chempy/champ/_champ.cpython-37m-x86_64-linux-gnu.so debian/rules override_dh_auto_test make[1]: Entering directory '/build/pymol-2.2.0+dfsg' @@ -9399,13 +9434,13 @@ dh_shlibdeps -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild -dpkg-gencontrol: warning: package python-pymol: substitution variable ${python3:Depends} unused, but is defined -dpkg-gencontrol: warning: package python-pymol: substitution variable ${python:Provides} unused, but is defined -dpkg-gencontrol: warning: package python-pymol: substitution variable ${python:Versions} unused, but is defined +dpkg-gencontrol: warning: Depends field of package pymol: substitution variable ${python3:Depends} used, but is not defined dpkg-gencontrol: warning: package python3-pymol: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-pymol: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-pymol: substitution variable ${python:Depends} unused, but is defined -dpkg-gencontrol: warning: Depends field of package pymol: substitution variable ${python3:Depends} used, but is not defined +dpkg-gencontrol: warning: package python-pymol: substitution variable ${python3:Depends} unused, but is defined +dpkg-gencontrol: warning: package python-pymol: substitution variable ${python:Provides} unused, but is defined +dpkg-gencontrol: warning: package python-pymol: substitution variable ${python:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-pymol: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-pymol: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-pymol: substitution variable ${python:Depends} unused, but is defined @@ -9415,10 +9450,10 @@ dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'pymol' in '../pymol_2.2.0+dfsg-4_all.deb'. -dpkg-deb: building package 'python-pymol' in '../python-pymol_2.2.0+dfsg-4_amd64.deb'. -dpkg-deb: building package 'python-pymol-dbgsym' in '../python-pymol-dbgsym_2.2.0+dfsg-4_amd64.deb'. dpkg-deb: building package 'python3-pymol-dbgsym' in '../python3-pymol-dbgsym_2.2.0+dfsg-4_amd64.deb'. dpkg-deb: building package 'pymol-data' in '../pymol-data_2.2.0+dfsg-4_all.deb'. +dpkg-deb: building package 'python-pymol-dbgsym' in '../python-pymol-dbgsym_2.2.0+dfsg-4_amd64.deb'. +dpkg-deb: building package 'python-pymol' in '../python-pymol_2.2.0+dfsg-4_amd64.deb'. dpkg-deb: building package 'python3-pymol' in '../python3-pymol_2.2.0+dfsg-4_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../pymol_2.2.0+dfsg-4_amd64.changes @@ -9427,12 +9462,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/2804822/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2804822/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/347362 and its subdirectories -I: Current time: Fri Dec 10 02:42:26 -12 2021 -I: pbuilder-time-stamp: 1639147346 +I: removing directory /srv/workspace/pbuilder/2804822 and its subdirectories +I: Current time: Fri Jan 13 11:10:48 +14 2023 +I: pbuilder-time-stamp: 1673557848