Diff of the two buildlogs: -- --- b1/build.log 2021-12-31 03:15:17.592178579 +0000 +++ b2/build.log 2021-12-31 04:55:54.291706791 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Dec 30 14:35:31 -12 2021 -I: pbuilder-time-stamp: 1640918131 +I: Current time: Thu Feb 2 23:38:24 +14 2023 +I: pbuilder-time-stamp: 1675330704 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -16,8 +16,8 @@ I: copying [./openstructure_2.2.0-6.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.oL6EJJSD/trustedkeys.kbx': General error -gpgv: Signature made Tue Feb 9 22:40:41 2021 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.mXx33fiL/trustedkeys.kbx': General error +gpgv: Signature made Thu Feb 11 00:40:41 2021 +14 gpgv: using RSA key 772292F6F7AC85FAE041D41EE5F43F9C2734F287 gpgv: issuer "merkys@debian.org" gpgv: Can't check signature: No public key @@ -38,135 +38,169 @@ dpkg-source: info: applying 9153648f1b773a1c1186d0a0ac29e78b659cd1f8.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3566537/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/660091/tmp/hooks/D01_modify_environment starting +debug: Running on ionos15-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/660091/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/660091/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,-fixfilepath 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]="1" [2]="4" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.1.4(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,-fixfilepath 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='ea896a56ba0d452b9481b310e8aeba9d' - 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='3566537' - PS1='# ' - PS2='> ' + INVOCATION_ID=856231aad4194ae79e0d6c8fbe9325f3 + 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=660091 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.mYooS8NuH5/pbuilderrc_wbxQ --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.mYooS8NuH5/b1 --logfile b1/build.log openstructure_2.2.0-6.dsc' - SUDO_GID='110' - SUDO_UID='105' - 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.mYooS8NuH5/pbuilderrc_qVCM --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.mYooS8NuH5/b2 --logfile b2/build.log openstructure_2.2.0-6.dsc' + SUDO_GID=111 + SUDO_UID=106 + 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 ionos1-amd64 5.10.0-10-amd64 #1 SMP Debian 5.10.84-1 (2021-12-08) 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 5476 - -rwxr-xr-x 1 root root 1234376 Aug 4 08:25 bash - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzcat - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 18424 Jul 20 2020 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore - -rwxr-xr-x 1 root root 43936 Sep 23 2020 cat - -rwxr-xr-x 1 root root 72672 Sep 23 2020 chgrp - -rwxr-xr-x 1 root root 64448 Sep 23 2020 chmod - -rwxr-xr-x 1 root root 72672 Sep 23 2020 chown - -rwxr-xr-x 1 root root 151168 Sep 23 2020 cp - -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash - -rwxr-xr-x 1 root root 113664 Sep 23 2020 date - -rwxr-xr-x 1 root root 80968 Sep 23 2020 dd - -rwxr-xr-x 1 root root 93936 Sep 23 2020 df - -rwxr-xr-x 1 root root 147176 Sep 23 2020 dir - -rwxr-xr-x 1 root root 84440 Jul 28 07:09 dmesg - lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname - -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 39680 Sep 23 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 69032 Jul 28 07:09 findmnt - -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount - -rwxr-xr-x 1 root root 203072 Nov 9 2020 grep - -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip - -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe - -rwxr-xr-x 1 root root 98048 Mar 2 2021 gzip - -rwxr-xr-x 1 root root 22600 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 72840 Sep 23 2020 ln - -rwxr-xr-x 1 root root 56952 Feb 7 2020 login - -rwxr-xr-x 1 root root 147176 Sep 23 2020 ls - -rwxr-xr-x 1 root root 149736 Jul 28 07:09 lsblk - -rwxr-xr-x 1 root root 85184 Sep 23 2020 mkdir - -rwxr-xr-x 1 root root 76896 Sep 23 2020 mknod - -rwxr-xr-x 1 root root 48064 Sep 23 2020 mktemp - -rwxr-xr-x 1 root root 59632 Jul 28 07:09 more - -rwsr-xr-x 1 root root 55528 Jul 28 07:09 mount - -rwxr-xr-x 1 root root 18664 Jul 28 07:09 mountpoint - -rwxr-xr-x 1 root root 147080 Sep 23 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd - lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash - -rwxr-xr-x 1 root root 52032 Sep 23 2020 readlink - -rwxr-xr-x 1 root root 72704 Sep 23 2020 rm - -rwxr-xr-x 1 root root 52032 Sep 23 2020 rmdir - -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Dec 20 21:25 sh -> dash - -rwxr-xr-x 1 root root 43808 Sep 23 2020 sleep - -rwxr-xr-x 1 root root 84928 Sep 23 2020 stty - -rwsr-xr-x 1 root root 71912 Jul 28 07:09 su - -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync - -rwxr-xr-x 1 root root 531928 Feb 16 2021 tar - -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 101408 Sep 23 2020 touch - -rwxr-xr-x 1 root root 39680 Sep 23 2020 true - -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server - -rwsr-xr-x 1 root root 35040 Jul 28 07:09 umount - -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress - -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir - -rwxr-xr-x 1 root root 63744 Jul 28 07:09 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat - -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp - -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff - -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep - -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep - -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce - -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep - -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless - -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore - -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew -I: user script /srv/workspace/pbuilder/3566537/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1234376 Aug 5 2021 bash + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzcat + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 18424 Jul 21 2020 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore + -rwxr-xr-x 1 root root 43936 Sep 24 2020 cat + -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp + -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod + -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown + -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp + -rwxr-xr-x 1 root root 125560 Dec 11 2020 dash + -rwxr-xr-x 1 root root 113664 Sep 24 2020 date + -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd + -rwxr-xr-x 1 root root 93936 Sep 24 2020 df + -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir + -rwxr-xr-x 1 root root 84440 Jul 29 2021 dmesg + lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname + -rwxr-xr-x 1 root root 39712 Sep 24 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 39680 Sep 24 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 69032 Jul 29 2021 findmnt + -rwsr-xr-x 1 root root 34896 Feb 27 2021 fusermount + -rwxr-xr-x 1 root root 203072 Nov 10 2020 grep + -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip + -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe + -rwxr-xr-x 1 root root 98048 Mar 3 2021 gzip + -rwxr-xr-x 1 root root 22600 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln + -rwxr-xr-x 1 root root 56952 Feb 8 2020 login + -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls + -rwxr-xr-x 1 root root 149736 Jul 29 2021 lsblk + -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir + -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod + -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp + -rwxr-xr-x 1 root root 59632 Jul 29 2021 more + -rwsr-xr-x 1 root root 55528 Jul 29 2021 mount + -rwxr-xr-x 1 root root 18664 Jul 29 2021 mountpoint + -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd + lrwxrwxrwx 1 root root 4 Aug 5 2021 rbash -> bash + -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink + -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm + -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir + -rwxr-xr-x 1 root root 27472 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Feb 2 23:39 sh -> bash + lrwxrwxrwx 1 root root 4 Jan 24 05:47 sh.distrib -> dash + -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep + -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty + -rwsr-xr-x 1 root root 71912 Jul 29 2021 su + -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync + -rwxr-xr-x 1 root root 531928 Feb 17 2021 tar + -rwxr-xr-x 1 root root 14456 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch + -rwxr-xr-x 1 root root 39680 Sep 24 2020 true + -rwxr-xr-x 1 root root 14328 Feb 27 2021 ulockmgr_server + -rwsr-xr-x 1 root root 35040 Jul 29 2021 umount + -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress + -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir + -rwxr-xr-x 1 root root 63744 Jul 29 2021 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat + -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp + -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff + -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep + -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep + -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce + -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep + -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless + -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore + -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew +I: user script /srv/workspace/pbuilder/660091/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -640,7 +674,7 @@ Get: 394 http://deb.debian.org/debian bullseye/main amd64 python3-scipy amd64 1.6.0-2 [12.3 MB] Get: 395 http://deb.debian.org/debian bullseye/main amd64 sip-dev amd64 4.19.25+dfsg-1 [259 kB] Get: 396 http://deb.debian.org/debian bullseye/main amd64 voronota amd64 1.22.3149-1 [2052 kB] -Fetched 214 MB in 6s (34.2 MB/s) +Fetched 214 MB in 14s (15.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19655 files and directories currently installed.) @@ -2253,7 +2287,8 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/openstructure-2.2.0/ && 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 > ../openstructure_2.2.0-6_source.changes +hostname: Name or service not known +I: Running cd /build/openstructure-2.2.0/ && 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 > ../openstructure_2.2.0-6_source.changes dpkg-buildpackage: info: source package openstructure dpkg-buildpackage: info: source version 2.2.0-6 dpkg-buildpackage: info: source distribution unstable @@ -2475,1322 +2510,1322 @@ -- Build files have been written to: /build/openstructure-2.2.0/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/openstructure-2.2.0' dh_auto_build - cd obj-x86_64-linux-gnu && make -j15 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/openstructure-2.2.0 -B/build/openstructure-2.2.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/openstructure-2.2.0/obj-x86_64-linux-gnu/CMakeFiles /build/openstructure-2.2.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.dir/depend +make -f modules/base/pymod/CMakeFiles/subst___init__.py.dir/build.make modules/base/pymod/CMakeFiles/subst___init__.py.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/create_stage.dir/DependInfo.cmake --color= -make -f modules/base/pymod/CMakeFiles/subst___init__.py.dir/build.make modules/base/pymod/CMakeFiles/subst___init__.py.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/subst___init__.py.dir/DependInfo.cmake --color= make -f modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/build.make modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/DependInfo.cmake --color= make -f modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build.make modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/depend +make -f modules/db/pymod/CMakeFiles/ost_db_pymod.dir/build.make modules/db/pymod/CMakeFiles/ost_db_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/DependInfo.cmake --color= -make -f modules/db/pymod/CMakeFiles/ost_db_pymod.dir/build.make modules/db/pymod/CMakeFiles/ost_db_pymod.dir/depend +make -f modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build.make modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/ost_db_pymod.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/create_stage.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/create_stage.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/subst___init__.py.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/subst___init__.py.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/subst___init__.py.dir/depend.internal". Scanning dependencies of target subst___init__.py make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/create_stage.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/create_stage.dir/depend.internal". +make -f modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build.make modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/depend Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/create_stage.dir/depend.internal". Scanning dependencies of target create_stage +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/DependInfo.cmake --color= make -f modules/base/pymod/CMakeFiles/subst___init__.py.dir/build.make modules/base/pymod/CMakeFiles/subst___init__.py.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/ost_db_pymod.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/gui/share/CMakeFiles/gui_images.dir/build.make modules/gui/share/CMakeFiles/gui_images.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/modules/base/pymod/__init__.py.in -DOUT_FILE=__init__.py -DALL_ADDITIONAL_MODULES=,\'gui\',\'gfx\',\'img\',\'info\' -P /build/openstructure-2.2.0/cmake_support/substitute.cmake +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/share /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/gui_images.dir/DependInfo.cmake --color= make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.dir/build Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/depend.internal". Scanning dependencies of target ost_bindings_pymod -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -make -f modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build.make modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/DependInfo.cmake --color= -make -f modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build.make modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/depend make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/DependInfo.cmake --color= -make -f modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/build.make modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/build +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/depend.internal". +Scanning dependencies of target ost_gfx_pymod Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/depend.internal". Scanning dependencies of target ost_conop_pymod +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/build.make modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./__init__.py -make -f modules/gui/share/CMakeFiles/gui_images.dir/build.make modules/gui/share/CMakeFiles/gui_images.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/share /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/gui_images.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./__init__.py +make -f modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build.make modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/ost_db_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/ost_db_pymod.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/ost_db_pymod.dir/depend.internal". Scanning dependencies of target ost_db_pymod -make -f modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build.make modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/conop/./__init__.py -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/db/pymod/CMakeFiles/ost_db_pymod.dir/build.make modules/db/pymod/CMakeFiles/ost_db_pymod.dir/build Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/depend.internal". Scanning dependencies of target ost_geom_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/bin -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/depend.internal". -Scanning dependencies of target ost_gfx_pymod -make -f modules/gui/share/CMakeFiles/scene_icons.dir/build.make modules/gui/share/CMakeFiles/scene_icons.dir/depend make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/db/pymod/CMakeFiles/ost_db_pymod.dir/build.make modules/db/pymod/CMakeFiles/ost_db_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/db/./__init__.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/conop/./__init__.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/bin make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/share /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/scene_icons.dir/DependInfo.cmake --color= -make -f modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build.make modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/db/./__init__.py +make -f modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build.make modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/gui_images.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/gui_images.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/gui_images.dir/depend.internal". +Scanning dependencies of target gui_images make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build.make modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/geom/./__init__.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./lga.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./lga.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/openstructure/libexec make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gfx/./__init__.py -make -f modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build.make modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build +make -f modules/gui/share/CMakeFiles/gui_images.dir/build.make modules/gui/share/CMakeFiles/gui_images.dir/build +make -f modules/gui/share/CMakeFiles/scene_icons.dir/build.make modules/gui/share/CMakeFiles/scene_icons.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/geom/./__init__.py -make -f modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/depend -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/scene_icons.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/scene_icons.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/scene_icons.dir/depend.internal". -Scanning dependencies of target scene_icons +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/images/logo-small.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/images/logo-small.png +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/share /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/scene_icons.dir/DependInfo.cmake --color= cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/pymod/./cleanup.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/conop/./cleanup.py -make -f modules/gui/share/CMakeFiles/scene_icons.dir/build.make modules/gui/share/CMakeFiles/scene_icons.dir/build +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests +make -f modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/depend [ 0%] Built target subst___init__.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./hbplus.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hbplus.py make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/add_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/add_icon.png +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/scene_icons.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/scene_icons.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/scene_icons.dir/depend.internal". make -f modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/depend -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/gui_images.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/gui_images.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share/CMakeFiles/gui_images.dir/depend.internal". -Scanning dependencies of target gui_images -make -f modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/depend +Scanning dependencies of target scene_icons +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/pymod/./py_gfx_obj.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gfx/./py_gfx_obj.py +[ 0%] Built target ost_db_pymod make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/DependInfo.cmake --color= -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/DependInfo.cmake --color= -make -f modules/gui/share/CMakeFiles/gui_images.dir/build.make modules/gui/share/CMakeFiles/gui_images.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./lga.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./lga.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/close_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/close_icon.png make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/images/logo-small.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/images/logo-small.png -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/pymod/./py_gfx_obj.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gfx/./py_gfx_obj.py -make -f modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build.make modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/depend +[ 0%] Built target ost_geom_pymod Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/depend.internal". Scanning dependencies of target ost_gui_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/openstructure/libexec -[ 0%] Built target ost_db_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./hbplus.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hbplus.py -make -f modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/build.make modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/DependInfo.cmake --color= +make -f modules/gui/share/CMakeFiles/scene_icons.dir/build.make modules/gui/share/CMakeFiles/scene_icons.dir/build +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/depend.internal". Scanning dependencies of target ost_gui_dng_pymod make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/depend.internal". make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/DependInfo.cmake --color= -Scanning dependencies of target ost_gui_scene_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/add_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/add_icon.png +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./msms.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./msms.py make -f modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build -make -f modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build +[ 0%] Built target ost_conop_pymod +[ 0%] Built target gui_images +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./__init__.py -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/critical_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/critical_icon.png +[ 0%] Built target create_stage +make -f modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build +make -f modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/dng/__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/dng/__init__.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./msms.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./msms.py -[ 0%] Built target ost_geom_pymod -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/depend.internal". -Scanning dependencies of target ost_img_pymod -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/depend.internal". -Scanning dependencies of target ost_img_alg_pymod -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/__init__.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/delete_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/delete_icon.png -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./init_context_menu.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./init_context_menu.py -make -f modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build.make modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/close_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/close_icon.png +make -f modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build.make modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/depend cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./tmtools.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./tmtools.py make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/img/./__init__.py -make -f modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/build.make modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/DependInfo.cmake --color= [ 0%] Built target ost_gfx_pymod -[ 0%] Built target ost_conop_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/dng/termuse.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/dng/termuse.py +make -f modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/build.make modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/img/alg/./__init__.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/DependInfo.cmake --color= make -f modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build.make modules/info/pymod/CMakeFiles/ost_info_pymod.dir/depend -[ 0%] Built target gui_images -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/distance_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/distance_icon.png +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/dng/termuse.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/dng/termuse.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./init_context_menu.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./init_context_menu.py +make -f modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build.make modules/io/pymod/CMakeFiles/ost_io_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/info/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/ost_info_pymod.dir/DependInfo.cmake --color= -make -f modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build.make modules/io/pymod/CMakeFiles/ost_io_pymod.dir/depend -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./init_menubar.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./init_menubar.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/color_options_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/color_options_widget.py +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/depend.internal". make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod/CMakeFiles/ost_io_pymod.dir/DependInfo.cmake --color= +Scanning dependencies of target ost_gui_scene_pymod +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build.make modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./dssp.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./dssp.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/critical_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/critical_icon.png +make -f modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/depend.internal". +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/__init__.py make -f modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/build.make modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/depend -make -f modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build.make modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/depend +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/depend.internal". +Scanning dependencies of target ost_img_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./dssp.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./dssp.py +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/depend.internal". +Scanning dependencies of target ost_img_alg_pymod +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build.make modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/DependInfo.cmake --color= +make -f modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/build.make modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/DependInfo.cmake --color= -make -f modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build.make modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/find_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/find_icon.png -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/img/./__init__.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./init_menubar.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./init_menubar.py Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/ost_info_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/ost_info_pymod.dir/depend.internal". -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/dng/superpositiondialog.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/dng/superpositiondialog.py Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/ost_info_pymod.dir/depend.internal". Scanning dependencies of target ost_info_pymod make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/color_select_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/color_select_widget.py -make -f modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build.make modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./init_spacenav.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./init_spacenav.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./clustalw.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./clustalw.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/dng/superpositiondialog.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/dng/superpositiondialog.py Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod/CMakeFiles/ost_io_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod/CMakeFiles/ost_io_pymod.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod/CMakeFiles/ost_io_pymod.dir/depend.internal". Scanning dependencies of target ost_io_pymod -[ 0%] Built target create_stage -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/delete_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/delete_icon.png make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/info/./__init__.py -make -f modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build.make modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/img/alg/./__init__.py +make -f modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build.make modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/depend.internal". +Scanning dependencies of target ost_mol_pymod +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/depend.internal". -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/dng/init.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/dng/init.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/information_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/information_icon.png Scanning dependencies of target ost_mol_alg_pymod make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/io/./__init__.py -make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/info/./__init__.py +make -f modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build.make modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/depend.internal". -Scanning dependencies of target ost_seq_pymod -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/depend.internal". make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_startup.py.dir/DependInfo.cmake --color= -Scanning dependencies of target ost_seq_alg_pymod -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/depend.internal". -Scanning dependencies of target ost_mol_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/io/./__init__.py +make -f modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build.make modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./clustalw.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./clustalw.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/color_options_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/color_options_widget.py +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/./__init__.py make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/build.make modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/build -[ 0%] Built target ost_img_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./init_spacenav.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./init_spacenav.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/dng/init.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/dng/init.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/distance_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/distance_icon.png make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./__init__.py -make -f modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build.make modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 0%] Built target ost_img_alg_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./init_splash.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./init_splash.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/pymod/./remote.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/io/./remote.py +make -f modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build.make modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/DependInfo.cmake --color= +make -f modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build.make modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/depend +[ 0%] Built target ost_img_pymod make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/combo_options_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/combo_options_widget.py +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/color_select_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/color_select_widget.py cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./utils.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./utils.py cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/dng/menu.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/dng/menu.py -make -f modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build.make modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./__init__.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/find_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/find_icon.png +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./init_splash.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./init_splash.py +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./views.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./views.py +[ 0%] Built target ost_img_alg_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/pymod/./repository.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/io/./repository.py +make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./naccess.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./naccess.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/combo_options_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/combo_options_widget.py +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/depend.internal". +Scanning dependencies of target ost_seq_pymod make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/./__init__.py -make -f modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build.make modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_startup.py.dir/DependInfo.cmake --color= +make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/depend +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/depend.internal". +Scanning dependencies of target ost_seq_alg_pymod +[ 0%] Built target ost_info_pymod +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 0%] Built target ost_mol_pymod +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/information_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/information_icon.png +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./superpose.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./superpose.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./trajectory_viewer.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./trajectory_viewer.py make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/./__init__.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/map_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/map_icon.png -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/pymod/./remote.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/io/./remote.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_dng.dir/DependInfo.cmake --color= +make -f modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build.make modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./hhblits.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits.py Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_startup.py.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_startup.py.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_startup.py.dir/depend.internal". Scanning dependencies of target subst_ost_startup.py -make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/./__init__.py +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build.make modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/cpk_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/cpk_widget.py make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_dng.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./trajectory_viewer.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./trajectory_viewer.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./views.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./views.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/pymod/./__init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./__init__.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/map_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/map_icon.png +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./helpwidget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./helpwidget.py +[ 0%] Built target ost_gui_dng_pymod +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_dng.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_dng.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_dng.dir/depend.internal". +Scanning dependencies of target subst_dng +make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/build +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/ost_startup.py.in -DOUT_FILE=ost_startup.py -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./qsscoring.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./qsscoring.py +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/dng.in -DOUT_FILE=dng -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/pymod/./mat.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./mat.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./hhblits2.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits2.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/custom_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/custom_widget.py make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost.dir/DependInfo.cmake --color= make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/depend make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/cpk_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/cpk_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./naccess.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./naccess.py make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_config.dir/DependInfo.cmake --color= -[ 0%] Built target ost_info_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/pymod/./repository.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/io/./repository.py -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/menubar_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/menubar_icon.png -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_dng.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_dng.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_dng.dir/depend.internal". -Scanning dependencies of target subst_dng -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./helpwidget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./helpwidget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./superpose.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./superpose.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/pymod/./renumber.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./renumber.py -make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/dng.in -DOUT_FILE=dng -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./table.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./table.py +[ 0%] Built target ost_io_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/pymod/./mat.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./mat.py make -f actions/CMakeFiles/actions.dir/build.make actions/CMakeFiles/actions.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/actions /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/actions /build/openstructure-2.2.0/obj-x86_64-linux-gnu/actions/CMakeFiles/actions.dir/DependInfo.cmake --color= +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost.dir/depend.internal". -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Scanning dependencies of target subst_ost -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_config.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_config.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_config.dir/depend.internal". -Scanning dependencies of target subst_ost_config -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/actions /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/actions /build/openstructure-2.2.0/obj-x86_64-linux-gnu/actions/CMakeFiles/actions.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/custom_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/custom_widget.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/gradient_editor_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/gradient_editor_widget.py make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 0%] Built target ost_gui_dng_pymod make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 0%] Built target ost_seq_pymod -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./qsscoring.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./qsscoring.py -[ 0%] Built target ost_mol_pymod -[ 0%] Built target subst_ost_startup.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/rigid_body_manipulator_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/rigid_body_manipulator_icon.png make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/ost.in -DOUT_FILE=ost -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake -make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/ost_config.in -DOUT_FILE=ost_config -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./hhblits.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/rigid_body_manipulator_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/rigid_body_manipulator_icon.png -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./table.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./table.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./trajectory_analysis.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./trajectory_analysis.py Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/actions/CMakeFiles/actions.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/actions/CMakeFiles/actions.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/actions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/actions/CMakeFiles/actions.dir/depend.internal". Scanning dependencies of target actions -[ 0%] Built target ost_io_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./gosty_startup.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./gosty_startup.py +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_config.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_config.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_config.dir/depend.internal". +Scanning dependencies of target subst_ost_config make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./trajectory_analysis.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./trajectory_analysis.py +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom_headers.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/gradient_editor_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/gradient_editor_widget.py -make -f actions/CMakeFiles/actions.dir/build.make actions/CMakeFiles/actions.dir/build +[ 0%] Built target subst_ost_startup.py +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 0%] Built target subst_dng +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./hhblits3.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits3.py +make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/selection_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/selection_icon.png -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/pymod/./renumber.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./renumber.py +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/ost_config.in -DOUT_FILE=ost_config -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake +make -f actions/CMakeFiles/actions.dir/build.make actions/CMakeFiles/actions.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/gradient_info_handler.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/gradient_info_handler.py make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/actions && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/actions/ost-compare-structures /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/openstructure/libexec/ost-compare-structures -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./hhblits2.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits2.py -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 0%] Built target subst_dng -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend.internal". -Scanning dependencies of target ost_geom_headers -[ 0%] Built target ost_seq_alg_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/./gosty_startup.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/./gosty_startup.py make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./structure_analysis.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./structure_analysis.py -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/selection_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/selection_icon.png make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/gradient_info_handler.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/gradient_info_handler.py -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/export_helper/vector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/export_helper/vector.hh -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config_headers.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config_headers.dir/depend.internal". -Scanning dependencies of target ost_config_headers make -f modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build.make modules/base/pymod/CMakeFiles/ost_base_pymod.dir/depend +make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend.internal". +Scanning dependencies of target ost_geom_headers +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/ost_base_pymod.dir/DependInfo.cmake --color= -make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./blast.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./blast.py make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base_headers.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base_headers.dir/depend.internal". Scanning dependencies of target ost_base_headers +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./structure_analysis.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./structure_analysis.py +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config_headers.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config_headers.dir/depend.internal". +Scanning dependencies of target ost_config_headers +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend.internal". +Scanning dependencies of target ost_seq_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/gradient_list_model.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/gradient_list_model.py +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/ost_base_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/ost_base_pymod.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/ost_base_pymod.dir/depend.internal". +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Scanning dependencies of target ost_base_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/show_sidebar_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/show_sidebar_icon.png +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./cadscore.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./cadscore.py +make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/build +[ 0%] Built target subst_ost make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/export_helper/vector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/export_helper/vector.hh make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./hhblits3.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits3.py -[ 0%] Built target subst_ost_config -[ 0%] Built target subst_ost make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./base.hh +[ 0%] Built target ost_gui_pymod cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./helix_kinks.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./helix_kinks.py -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/show_sidebar_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/show_sidebar_icon.png -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./def.hh +[ 0%] Built target ost_seq_alg_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/gradient_preset_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/gradient_preset_widget.py make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/build -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/ost_base_pymod.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/ost_base_pymod.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/ost_base_pymod.dir/depend.internal". -Scanning dependencies of target ost_base_pymod -make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/site_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/site_icon.png make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/export_helper/generic_property_def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/export_helper/generic_property_def.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/gradient_list_model.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/gradient_list_model.py -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./blast.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./blast.py -[ 0%] Built target actions -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/info/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/ost_info_headers.dir/DependInfo.cmake --color= make -f modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build.make modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend.internal". -Scanning dependencies of target ost_seq_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./hbond.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./hbond.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./config.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./kclust.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./kclust.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./def.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./settings.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./settings.py -[ 0%] Built target ost_gui_pymod make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/site_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/site_icon.png +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./config.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_impl.hh +make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/depend +[ 0%] Built target subst_ost_config +[ 0%] Built target actions make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/info/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/ost_info_headers.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/pymod/./hbond.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/alg/./hbond.py cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/export_helper/pair_to_tuple_conv.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/export_helper/pair_to_tuple_conv.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./ialign.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./ialign.py cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./exc.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./exc.hh -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/hsc_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/hsc_widget.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/split_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/split_icon.png make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/gradient_preset_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/gradient_preset_widget.py -make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/DependInfo.cmake --color= -make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/DependInfo.cmake --color= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/ost_info_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/ost_info_headers.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/ost_info_headers.dir/depend.internal". Scanning dependencies of target ost_info_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./cadscore.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./cadscore.py -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop_headers.dir/DependInfo.cmake --color= -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./stutil.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./stutil.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/split_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/split_icon.png -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./dllexport.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./dllexport.hh +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/DependInfo.cmake --color= make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/build -make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/depend +make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./stutil.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./stutil.py cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_impl_fw.hh -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db_headers.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/export_helper/vec_to_list_conv.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/export_helper/vec_to_list_conv.hh Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/depend.internal". Scanning dependencies of target ost_mol_headers make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./dllexport.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./dllexport.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/immutable_gradient_info_handler.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/immutable_gradient_info_handler.py +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./geom.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./geom.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/export_helper/vec_to_list_conv.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/export_helper/vec_to_list_conv.hh -[ 0%] Built target ost_mol_alg_pymod -make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/warning_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/warning_icon.png Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/depend.internal". Scanning dependencies of target ost_bindings_headers make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/hsc_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/hsc_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./kclust.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./kclust.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./table.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./table.py +make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build +[ 0%] Built target ost_bindings_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_error.hh +make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/pointer_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/pointer_iterator.hh -make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./table.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./table.py -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db_headers.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db_headers.dir/depend.internal". -Scanning dependencies of target ost_db_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./version.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./version.hh Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend.internal". Scanning dependencies of target ost_seq_alg_headers -Scanning dependencies of target ost_conop_headers make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/src/./wrap_tmalign.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/bindings/./wrap_tmalign.hh -make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/build -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/warning_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/warning_icon.png -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_error.hh -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./sqlite_wrap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./sqlite_wrap.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/test_utils/compare_files.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/test_utils/compare_files.hh make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_impl.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/test_utils/compare_files.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/test_utils/compare_files.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/immutable_gradient_info_handler.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/immutable_gradient_info_handler.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_group.hh +make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./alignment_opts.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./alignment_opts.hh -make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/immutable_preset_info_handler.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/immutable_preset_info_handler.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./version.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./version.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./conop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./conop.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop_headers.dir/DependInfo.cmake --color= +make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/depend +[ 0%] Built target ost_mol_alg_pymod +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/refresh.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/refresh.png make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db_headers.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_impl_fw.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./sqlite_conv.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./sqlite_conv.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./table_selector.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./table_selector.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/share/icons/refresh.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/gui/icons/refresh.png -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/pymod/./ialign.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./ialign.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./generic_property.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./generic_property.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/init_inspector.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/init_inspector.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_group.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./clip_alignment.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./clip_alignment.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat2.hh -[ 0%] Built target ost_config_headers make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_prop.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./generic_property.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./generic_property.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./clip_alignment.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./clip_alignment.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_iterator.hh +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db_headers.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db_headers.dir/depend.internal". +Scanning dependencies of target ost_db_headers make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/immutable_preset_info_handler.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/immutable_preset_info_handler.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_impl.hh +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend.internal". +Scanning dependencies of target ost_conop_headers +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./table_selector.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./table_selector.py +make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/build +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img_headers.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img_headers.dir/depend.internal". Scanning dependencies of target ost_img_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./processor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./processor.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend.internal". -Scanning dependencies of target ost_img_alg_headers -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./xmlrunner.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./xmlrunner.py +[ 0%] Built target ost_bindings_headers +make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./sqlite_wrap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./sqlite_wrap.hh +[ 0%] Built target ost_config_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./integrity_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./integrity_error.hh make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./conop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./conop.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/inspector_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/inspector_widget.py +make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/raster_image/raster_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/raster_image/raster_image.hh -make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat3.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 0%] Built target ost_bindings_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./integrity_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./integrity_error.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_iterator.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./conservation.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./conservation.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/init_inspector.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/init_inspector.py -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./anisotropic.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./anisotropic.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./testutils.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./testutils.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_prop.hh [ 0%] Built target scene_icons -make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./linear_indexer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./linear_indexer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./amino_acids.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./amino_acids.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./invalid_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./invalid_handle.hh -make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./conservation.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./conservation.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat3.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/dispatch.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/dispatch.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_list.hh +make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./xmlrunner.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./xmlrunner.py +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend.internal". +Scanning dependencies of target ost_img_alg_headers +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./sqlite_conv.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./sqlite_conv.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./invalid_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./invalid_handle.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./contact_prediction_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./contact_prediction_score.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different __init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/__init__.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_list.hh -[ 0%] Built target ost_bindings_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat4.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat4.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./ptr_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./ptr_observer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/inspector_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/inspector_widget.py +make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./anisotropic.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./anisotropic.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/map_level_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/map_level_widget.py make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./diag.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./diag.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_impl.hh +make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_group.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./processor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./processor.hh +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui_headers.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./contact_prediction_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./contact_prediction_score.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat4.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat4.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/dispatch.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/dispatch.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_impl_fw.hh +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/depend.internal". +Scanning dependencies of target ost_mol_alg_headers make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./auto_correlate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./auto_correlate.hh Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io_headers.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io_headers.dir/depend.internal". Scanning dependencies of target ost_io_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/chain_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./paged_array.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./paged_array.hh make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./auto_correlate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./auto_correlate.hh +make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/pymod/./testutils.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./testutils.py +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./svd_superpose.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./svd_superpose.hh make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./ptr_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./ptr_observer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./contact_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./contact_weight_matrix.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/chemdict_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/chemdict_parser.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./contact_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./contact_weight_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./log.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./log.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_handle.hh -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/depend.internal". -Scanning dependencies of target ost_mol_alg_headers -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_group.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./alignment_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./alignment_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/preset.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/preset.py Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/depend.internal". +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec.hh +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend.internal". +Scanning dependencies of target ost_gui_headers Scanning dependencies of target ost_gfx_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./binary_container.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./binary_container.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/map_level_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/map_level_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_item.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_item.hh -make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./model_check.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./model_check.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./clear.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./clear.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/chain_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./distance_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./distance_map.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./amino_acids.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./amino_acids.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/chain_impl.hh make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./svd_superpose.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./svd_superpose.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./log_sink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./log_sink.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./alignment_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./alignment_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_gen.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/star_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/star_parser.hh -[ 0%] Built target ost_base_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./heuristic.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./heuristic.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec2.hh -make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend +make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./clear.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./clear.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./linear_indexer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./linear_indexer.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/preset.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/preset.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./extract_data_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./extract_data_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./profile.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./clip_min_max.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./clip_min_max.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./entropy.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./entropy.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./distance_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./distance_map.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/star_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/star_parser.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E copy_if_different __init__.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/__init__.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec2.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/remote.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/remote.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec3.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound.hh -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui_headers.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend.internal". -Scanning dependencies of target ost_gui_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./log.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./log.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/chain_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./paged_array.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./paged_array.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_item.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_item.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./sec_structure_segments.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./sec_structure_segments.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./clip_min_max.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./clip_min_max.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./diag.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./diag.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen_s.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_gen_s.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./dyn_cast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./dyn_cast.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/connector_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/connector_impl.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/mmcif_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/mmcif_reader.hh -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./global_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./global_align.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./entropy.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./entropy.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./binary_container.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./binary_container.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/connector_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/connector_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./local_dist_diff_test.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./local_dist_diff_test.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec3.hh make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_option_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_option_group.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/preset_editor_list_model.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/preset_editor_list_model.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./sec_structure_segments.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./sec_structure_segments.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./conjugate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./conjugate.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/connector_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/connector_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./log_sink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./log_sink.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen_s.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_gen_s.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound_lib.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound_lib.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./stdint.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./stdint.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec4.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec4.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_base_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_base_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_path.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_path.hh -[ 0%] Built target ost_db_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./ins_del.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./ins_del.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./model_check.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./model_check.hh +[ 0%] Built target ost_base_pymod make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/mmcif_info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/mmcif_info.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_option_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_option_group.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./global_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./global_align.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_region.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_region.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/connector_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/connector_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/mmcif_info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/mmcif_info.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_base.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/preset_editor_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/preset_editor_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_def.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./local_dist_diff_test.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./local_dist_diff_test.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_set.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_set.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./extract_data_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./extract_data_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec4.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec4.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./distance_test_common.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./distance_test_common.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./convolute.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./convolute.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./heuristic.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./heuristic.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_spec.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_spec.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_region.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_region.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./stdint_msc.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./stdint_msc.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_column.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_column.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./profile.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./ins_del.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./ins_del.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/dihedral.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/dihedral.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_base_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_base_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./distance_rmsd_test.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./distance_rmsd_test.hh Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config.dir/depend.internal". Scanning dependencies of target ost_config -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/dihedral.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/dihedral.hh make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./local_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./local_align.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/io_profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/io_profile.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./correlate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./correlate.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_path.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_path.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/preset_info_handler.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/preset_info_handler.py +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_bar.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat_op.hh +make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./dyn_cast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./dyn_cast.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_column_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_column_iterator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'modules/config/CMakeFiles/ost_config.dir/build'. make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./distance_test_common.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./distance_test_common.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_column.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_column.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./correlate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./correlate.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat2_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat2_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_factory.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/entity_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/entity_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_visitor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./rule_based.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./rule_based.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./cross_correlate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./cross_correlate.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./local_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./local_align.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_def.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_set.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_set.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/preset_list_model.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/preset_list_model.py cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/dcd_io.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/dcd_io.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./range.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./range.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/entity_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/entity_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/selection_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/selection_tool.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./stdint.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./stdint.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_octree.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_octree.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./invalid_sequence.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./invalid_sequence.hh +[ 0%] Built target ost_db_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat2_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat2_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./superpose_frames.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./superpose_frames.hh [ 0%] Built target ost_config cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/preset_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/preset_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_octree.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_octree.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./merge_pairwise_alignments.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./merge_pairwise_alignments.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_column_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_column_iterator.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat3_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat3_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_frequency_domain.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_frequency_domain.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_verbose_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_verbose_visitor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./distance_rmsd_test.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./distance_rmsd_test.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/selection_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/selection_tool.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_factory.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./density_slice.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./density_slice.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/octree_isocont.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/octree_isocont.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_crd_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_crd_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./minimal_compound_lib.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./minimal_compound_lib.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./merge_pairwise_alignments.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./merge_pairwise_alignments.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound_lib.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound_lib.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/measure_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/measure_tool.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/entity_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/entity_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./stdint_msc.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./stdint_msc.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat3_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat3_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/render_mode_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/render_mode_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./units.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./units.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./invalid_sequence.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./invalid_sequence.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/octree_isocont.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/octree_isocont.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./views_from_sequences.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./views_from_sequences.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_frequency_domain.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_frequency_domain.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./filter_clashes.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./filter_clashes.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat4_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat4_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pqr_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_pqr_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./superpose_frames.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./superpose_frames.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_half_frequency_domain.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_half_frequency_domain.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/cartoon_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/cartoon_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./item_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./item_type.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./dft.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./dft.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/measure_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/measure_tool.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pqr_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_pqr_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_verbose_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_verbose_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/fragment_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/fragment_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./range.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./range.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/render_op.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/render_op.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound_lib_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound_lib_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_option.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_option.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./profile_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./profile_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat4_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat4_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/cartoon_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/cartoon_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_half_frequency_domain.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_half_frequency_domain.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./pair_subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./pair_subst_weight_matrix.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fft.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fft.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./construct_cbeta.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./construct_cbeta.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_mae_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_mae_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./item_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./item_type.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_manager.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./rule_based.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./rule_based.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/render_options_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/render_options_widget.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/fragment_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/fragment_impl_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./circular_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./circular_iterator.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./pair_subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./pair_subst_weight_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./message.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./message.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./views_from_sequences.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./views_from_sequences.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_mmcif_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_mmcif_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/custom_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/custom_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fft.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fft.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./ring_finder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./ring_finder.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./filter_clashes.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./filter_clashes.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./constants.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./constants.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./geom_info_conversion.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./geom_info_conversion.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./semiglobal_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./semiglobal_align.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_option.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_option.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/fragment_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/fragment_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/render_options_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/render_options_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./platform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./platform.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/cpk_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/cpk_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./profile_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./profile_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_spatial_domain.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_spatial_domain.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fftw_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fftw_helper.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite2.hh -[ 0%] Built target ost_conop_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./construct_cbeta.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./construct_cbeta.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/debug_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/debug_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./item_type_cast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./item_type_cast.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./sequence_identity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./sequence_identity.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_ast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_ast.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_manager.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./string_ref.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./string_ref.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/scene_observer_impl.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/scene_observer_impl.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fill.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fill.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite3.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_visitor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/simple_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/simple_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options_widget.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./clash_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./clash_score.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/scene_selection_helper.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/scene_selection_helper.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pdb_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_pdb_handler.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./geom_info_conversion.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./geom_info_conversion.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/scene_observer_impl.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/scene_observer_impl.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_ast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_ast.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./units.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./units.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./minimal_compound_lib.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./minimal_compound_lib.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_mmcif_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_mmcif_handler.hh [ 0%] Built target ost_seq_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options_widget.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./sequence_similarity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./sequence_similarity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fill.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fill.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/cpk_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/cpk_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_spatial_domain.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_spatial_domain.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/manipulator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/manipulator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./sequence_identity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./sequence_identity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./constants.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./constants.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./item_type_cast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./item_type_cast.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_ast_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_ast_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./pod_vector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./pod_vector.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/sline_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/sline_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/simple_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/simple_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_writer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./subst_weight_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./filter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./filter.hh -[ 0%] Built target ost_info_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_algorithm.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./message.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./message.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/scene_selection_helper.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/scene_selection_helper.py cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./trajectory_analysis.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./trajectory_analysis.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/debug_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/debug_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_win.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options_win.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound_lib_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound_lib_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./filter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./filter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/simple_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/simple_widget.py cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/manipulator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/manipulator.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/sline_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/sline_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./fixed_string.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./fixed_string.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite2_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite2_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./variance_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./variance_map.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/trace_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./platform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./platform.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/simple_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/simple_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./sequence_similarity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./sequence_similarity.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./structure_analysis.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./structure_analysis.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fourier_filters.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fourier_filters.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_sdf_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_sdf_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_visitor_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_visitor_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite3_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite3_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/toolbar_options_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/toolbar_options_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_win.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options_win.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_reader.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./data/default_contact_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./default_contact_weight_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./tri_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./tri_matrix.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./ring_finder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./ring_finder.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/mouse_event.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/mouse_event.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_algorithm.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/sline_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/sline_widget.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/sline_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/sline_renderer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./consistency_checks.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./consistency_checks.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/line_trace_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/line_trace_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./string_ref.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./string_ref.hh +[ 0%] Built target ost_info_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite2.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./subst_weight_matrix.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_visitor_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_visitor_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/map_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/map_tool.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./gaussian_gradient_magnitude.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./gaussian_gradient_magnitude.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/mouse_event.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/mouse_event.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/sdf_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/sdf_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/index.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/index.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./aligned_cuboid.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./aligned_cuboid.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/trace_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/trace_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./gaussian.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./gaussian.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pdb_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_pdb_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/residue_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/residue_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./data/default_pair_subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./default_pair_subst_weight_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./boost_filesystem_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./boost_filesystem_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/trace_renderer.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./pod_vector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./pod_vector.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./variance_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./variance_map.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./pdbize.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./pdbize.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite3.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/line_trace_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/line_trace_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/toolbar_options_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/toolbar_options_widget.py +[ 0%] Built target ost_conop_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/align_properties_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/align_properties_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/index.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/index.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./data/default_contact_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./default_contact_weight_matrix.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_writer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./gaussian.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./gaussian.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/residue_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/residue_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/backbone_trace.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/backbone_trace.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/sdf_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/sdf_writer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./fixed_string.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./fixed_string.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./adjacency_bitmap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./adjacency_bitmap.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/base_row.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./data/default_pair_subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./default_pair_subst_weight_matrix.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/type_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/residue_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/residue_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/tube_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/tube_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/map_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/map_tool.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec_mat_predicates.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec_mat_predicates.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/trace_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/trace_widget.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite2_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite2_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/surface_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/surface_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_sdf_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_sdf_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./gaussian_laplacian.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./gaussian_laplacian.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./tri_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./tri_matrix.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_detail.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_detail.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./hmm_pseudo_counts.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./hmm_pseudo_counts.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./adjacency_bitmap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./adjacency_bitmap.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/save_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/save_entity.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/surface_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/surface_impl.hh -[ 0%] Built target ost_base_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/align_properties_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/align_properties_painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/value_holder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/value_holder.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/uniform_color_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/uniform_color_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./quat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./quat.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./consistency_checks.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./consistency_checks.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/tube_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/tube_widget.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/value_holder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/value_holder.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/background_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/background_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite3_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite3_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/surface_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/surface_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/sdf_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/sdf_reader.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./highest_peak_search_3d.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./highest_peak_search_3d.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./boost_filesystem_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./boost_filesystem_helper.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./algorithm.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/surface_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/surface_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/load_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/load_entity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./contact_overlap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./contact_overlap.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./hmm_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./hmm_score.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/visibility_op.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/visibility_op.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/base_row.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./transform.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./histogram.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./histogram.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./circle_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./circle_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/uniform_color_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/uniform_color_widget.py cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/torsion_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/torsion_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/line_trace_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/line_trace_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/trace_renderer_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./contact_overlap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./contact_overlap.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/background_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/background_painter.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/surface_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/surface_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./point_cloud.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./point_cloud.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/wireframe_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/wireframe_widget.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./composite_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./composite_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./aligned_cuboid.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./aligned_cuboid.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./algorithm.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/conservation_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/conservation_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/sdf_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/sdf_writer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./histogram.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./histogram.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/torsion_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/torsion_impl_fw.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/trace_renderer_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./domain_find.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./domain_find.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec_mat_predicates.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec_mat_predicates.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/visibility_op.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/visibility_op.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./circle_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./circle_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/save_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/save_entity.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./line_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./line_iterator.hh +[ 0%] Built target ost_base_headers +[ 0%] Built target ost_seq_alg_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/secstr_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/secstr_row.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./similarity_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./similarity_matrix.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/connect_renderer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/connect_renderer_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./domain_find.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./domain_find.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./quat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./quat.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/line_trace_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/line_trace_widget.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./composite_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./composite_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./local_sigma_threshold.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./local_sigma_threshold.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/load_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/load_entity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_view.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/wireframe_widget.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/wireframe_widget.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_secstr_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_secstr_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./transform.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/mapped_property.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/mapped_property.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./accessibility.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./accessibility.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_algorithm.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./mask_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./mask_image.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/surface_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/surface_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_renderer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_renderer_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bond_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bond_handle.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/pymod/scene/query_editor.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gui/scene/query_editor.py +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_selection_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_selection_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./sec_struct.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./sec_struct.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./point_cloud.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./point_cloud.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_observer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./negate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./negate.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/load_surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/load_surface.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/tabulated_trig.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/tabulated_trig.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bond_table.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bond_table.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./nonstandard.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./nonstandard.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_text_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_text_painter.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./module_config.hh -[ 0%] Built target ost_seq_alg_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_algorithm.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./local_sigma_threshold.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./local_sigma_threshold.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/mapped_property.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/mapped_property.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_types.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_types.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./normalizer_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./normalizer_factory.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/fast_spheres.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/fast_spheres.hh +[ 0%] Built target ost_gui_scene_pymod cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/surface_io_msms_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/surface_io_msms_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./similarity_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./similarity_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_base.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./molck.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./molck.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_delegate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_delegate.hh make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_observer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./mask_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./mask_image.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/secstr_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/secstr_row.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_str.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_str.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./accessibility.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./accessibility.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_renderer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_renderer_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./negate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./negate.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./find_membrane.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./find_membrane.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./debug.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./debug.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_model.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_model.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/line_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/line_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./normalizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./normalizer.hh [ 0%] Built target ost_geom_headers -[ 0%] Built target ost_gui_scene_pymod -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_types.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_types.hh make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/stereochemical_params_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/stereochemical_params_reader.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_view.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./sec_struct.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./sec_struct.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/stereochemical_params_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/stereochemical_params_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_secstr_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_secstr_painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/tabulated_trig.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/tabulated_trig.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./normalizer_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./normalizer_factory.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_view.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./entity_to_density.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./entity_to_density.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/custom_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/custom_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_type.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./dllexport.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./dllexport.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/load_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/load_map.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_linear.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_linear.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_row.hh Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom.dir/depend.internal". -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/load_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/load_map.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_selection_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_selection_painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bond_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bond_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./debug.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./debug.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/fast_spheres.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/fast_spheres.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./nonstandard.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./nonstandard.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_text_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_text_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chem_class.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chem_class.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/cpk_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/cpk_render_options.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_df3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_df3_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bond_table.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bond_table.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent_iterator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chem_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chem_type.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_log.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_log.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_search_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_search_bar.hh +[ 0%] Built target ost_mol_alg_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/simple_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/simple_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_group.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_od.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_od.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/image_format.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/image_format.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_source.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/sline_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/sline_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./power_spectrum.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./power_spectrum.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_table_view.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dx_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dx_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./in_mem_coord_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./in_mem_coord_source.hh Scanning dependencies of target ost_geom -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/render_options.hh make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./dllexport.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./dllexport.hh make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/line_trace_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/line_trace_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./randomize.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./randomize.hh make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./normalizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./normalizer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/image_format.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/image_format.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_delegate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_delegate.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./molck.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./molck.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/line_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/line_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_spi_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_spi_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_frame.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_frame.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/cartoon_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/cartoon_render_options.hh [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat2.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./smooth_mask_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./smooth_mask_image.hh +[ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat3.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_factory.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/mat2.cc.o -c /build/openstructure-2.2.0/modules/geom/src/mat2.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent_iterator.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_linear.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_linear.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/custom_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/custom_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./editor_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./editor_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/mat3.cc.o -c /build/openstructure-2.2.0/modules/geom/src/mat3.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_situs_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_situs_handler.hh [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat4.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/mat4.cc.o -c /build/openstructure-2.2.0/modules/geom/src/mat4.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_model.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_model.hh -[ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat3.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dx_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dx_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/mat3.cc.o -c /build/openstructure-2.2.0/modules/geom/src/mat3.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_handle.hh -[ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vec3.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./find_membrane.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./find_membrane.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./editor_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./editor_type_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/tick_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/tick_painter.hh [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat2_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/cpk_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/cpk_render_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/vec3.cc.o -c /build/openstructure-2.2.0/modules/geom/src/vec3.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/vecmat2_op.cc.o -c /build/openstructure-2.2.0/modules/geom/src/vecmat2_op.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_log.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_log.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_row.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_spi_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_spi_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./entity_to_density.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./entity_to_density.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_view.hh -[ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat3_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/simple_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/simple_render_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/vecmat3_op.cc.o -c /build/openstructure-2.2.0/modules/geom/src/vecmat3_op.cc +[ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vec3.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/trace_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/trace_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/vec3.cc.o -c /build/openstructure-2.2.0/modules/geom/src/vec3.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_fw.hh [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat4_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./mol.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./mol.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/vecmat4_op.cc.o -c /build/openstructure-2.2.0/modules/geom/src/vecmat4_op.cc -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_od.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_od.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_search_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_search_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_situs_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_situs_handler.hh +[ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat3_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/vecmat3_op.cc.o -c /build/openstructure-2.2.0/modules/geom/src/vecmat3_op.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/title_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/title_row.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_handle_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_handle_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_base.hh [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite2.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/composite2.cc.o -c /build/openstructure-2.2.0/modules/geom/src/composite2.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_factory.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/sline_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/sline_render_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_type.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_table_view.hh -[ 1%] Built target ost_mol_alg_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./power_spectrum.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./power_spectrum.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/line_trace_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/line_trace_render_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chem_class.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chem_class.hh [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite3.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/composite3.cc.o -c /build/openstructure-2.2.0/modules/geom/src/composite3.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./randomize.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./randomize.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/cartoon_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/cartoon_render_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chem_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chem_type.hh +[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite2_op.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_mrc_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_mrc_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_handle_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_handle_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/tick_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/tick_painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./smooth_mask_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./smooth_mask_image.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dat_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dat_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/trace_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/trace_render_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/title_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/title_row.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/composite2_op.cc.o -c /build/openstructure-2.2.0/modules/geom/src/composite2_op.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_group.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_ipl_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_ipl_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat_accumulator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat_accumulator.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/alignment_view_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/alignment_view_object.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_jpk_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_jpk_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_source.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_base.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_element_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/by_element_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat_accumulator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat_accumulator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat_min_max.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat_min_max.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dat_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dat_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_view_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/base_view_object.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_nanoscope_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_nanoscope_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_chain_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/by_chain_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_list.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat_min_max.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat_min_max.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_handle.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_view_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_view_object.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./in_mem_coord_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./in_mem_coord_source.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_chain_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/by_chain_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_state_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_state_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_png_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_png_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./threshold.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./threshold.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_ipl_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_ipl_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/uniform_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/uniform_color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_state_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_state_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/main_thread_runner.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/main_thread_runner.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dm3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dm3_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_state.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_frame.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_frame.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_observer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/output_redirector.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/uniform_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/uniform_color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_jpk_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_jpk_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transcendentals.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transcendentals.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_tiff_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_tiff_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/completer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/completer_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./editor_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./editor_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_state.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_observer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_observer_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/gradient_color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/completer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/completer_base.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transform.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/tiff_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/tiff_util.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_nanoscope_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_nanoscope_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/dir_model.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/dir_model.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_property_mapper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_property_mapper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_view.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transform_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transform_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./inverted_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./inverted_mask.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./editor_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./editor_type_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/gutter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/gutter.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/entity_view_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/entity_view_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/jpk_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/jpk_util.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./mol.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./mol.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./inverted_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./inverted_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_png_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_png_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/path_completer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/path_completer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/basic_gradient_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/basic_gradient_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./map.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/gutter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/gutter.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./alg_transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./alg_transform.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/basic_gradient_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/basic_gradient_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/sequence_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/sequence_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_base_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_base_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/path_completer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/path_completer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_context_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_context_parser.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_visitor_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_visitor_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_level_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/gradient_level_color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dm3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dm3_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_base_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_base_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./alg_mirror.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./alg_mirror.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/fasta_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/fasta_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/map_handle_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/map_handle_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_context_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_context_parser.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./handle_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./handle_type_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./alg_shift.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./alg_shift.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/map_handle_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/map_handle_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_completer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_completer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_tiff_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_tiff_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/pir_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/pir_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./discrete_shrink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./discrete_shrink.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./render_pass.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./render_pass.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_observer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_shell.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/promod_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/promod_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transformation_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transformation_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_observer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_observer_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./render_pass.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./render_pass.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./discrete_shrink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./discrete_shrink.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./ics_editor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./ics_editor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/tiff_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/tiff_util.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_visitor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./bitmap_io.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./bitmap_io.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_shell_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/profile_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/profile_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transformation_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transformation_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./bitmap_io.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./bitmap_io.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./not_connected_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./not_connected_error.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/jpk_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/jpk_util.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_shell_widget.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./collada_exporter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./collada_exporter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_property_mapper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_property_mapper.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/hhm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/hhm_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transformations.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transformations.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./property_id.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./property_id.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/sequence_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/sequence_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./normalizer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./normalizer_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fractional_shift.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fractional_shift.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_tokenizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_tokenizer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./color.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./color.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/pssm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/pssm_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_view.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fractional_shift.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fractional_shift.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/fasta_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/fasta_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_syntax_highlighter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_syntax_highlighter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./normalizer_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./normalizer_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/pir_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/pir_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_error.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./entity.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/clustal_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/clustal_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./polar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./polar.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./null_data.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./null_data.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_state.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/promod_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/promod_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/text_logger.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./normalizer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./normalizer_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/load.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/load.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./entity_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./entity_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./observable.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./observable.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./line_average.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./line_average.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_visitor_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_visitor_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./polar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./polar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./normalizer_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./normalizer_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/save.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/save.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./paste_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./paste_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/profile_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/profile_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gl_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gl_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./rscrosscorr.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./rscrosscorr.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./handle_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./handle_type_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./line_average.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./line_average.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./binary_data_sink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./binary_data_sink.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./peak.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./peak.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/hhm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/hhm_io_handler.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_text_document_layout.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_shell_text_document_layout.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./null_data.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./null_data.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./phase.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./phase.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./ics_editor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./ics_editor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./rscrosscorr.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./rscrosscorr.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_manager.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/shell_history.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/shell_history.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./not_connected_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./not_connected_error.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_prop.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/pssm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/pssm_io_handler.hh +[ 1%] Built target ost_img_alg_headers cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./observable.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./observable.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./binary_data_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./binary_data_source.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./physical_units.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./physical_units.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/shell_history.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/shell_history.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_view.hh +[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite3_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/composite3_op.cc.o -c /build/openstructure-2.2.0/modules/geom/src/composite3_op.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./pixel_sampling.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./pixel_sampling.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/clustal_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/clustal_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./sec_structure.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./sec_structure.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/state_machine.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/state_machine.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./property_id.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./property_id.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./paste_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./paste_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./container_serialization.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./container_serialization.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node_fw.hh -[ 1%] Built target ost_img_alg_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./point_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./point_list.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/load.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/load.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/state.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./swap_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./swap_util.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node_visitor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./peak.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./peak.hh -[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite2_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/composite2_op.cc.o -c /build/openstructure-2.2.0/modules/geom/src/composite2_op.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_error.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_utils.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_utils.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./spatial_organizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./spatial_organizer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./point.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./point.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/transition.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/transition.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./phase.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./phase.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/save.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/save.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./polygon_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./polygon_mask.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/transition_guard.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/transition_guard.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_state.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./physical_units.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./physical_units.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_exception.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_exception.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./binary_data_sink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./binary_data_sink.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_builder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_builder.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./progress.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./progress.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_manager.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/button_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/button_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./pixel_sampling.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./pixel_sampling.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./convert.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./convert.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./point_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./point_list.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_prim.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_prim.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./builder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./builder.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./size.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./size.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./binary_data_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./binary_data_source.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_handle.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/drop_box.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/drop_box.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./point.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./point.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./converting_streams.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./converting_streams.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./polygon_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./polygon_mask.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./symmetry_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./symmetry_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_prop.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./spherical_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./spherical_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_prop.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/panel_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/panel_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./formatted_line.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./formatted_line.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./progress.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./progress.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_view.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_test_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_test_object.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./util.cc /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./util.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./torsion_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./torsion_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./container_serialization.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./container_serialization.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/panel_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/panel_manager.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./sec_structure.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./sec_structure.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./size.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./size.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/chemdict_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./chemdict_parser.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_prim.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_prim.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./transfer_connectivity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./transfer_connectivity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./util.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./swap_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./swap_util.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/bottom_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/bottom_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./glwin_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./glwin_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./spatial_organizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./spatial_organizer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./spherical_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./spherical_mask.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/star_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./star_parser.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./value_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./value_util.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./symmetry_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./symmetry_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_utils.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_utils.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_view_wrapper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_view_wrapper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./vecmat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./vecmat.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/button_box.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/button_box.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./input.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./input.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./util.cc /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./util.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/mmcif_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./mmcif_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_builder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_builder.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/mmcif_info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./mmcif_info.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_test_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_test_object.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_exception.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_exception.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_info_convert.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_info_convert.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/event_button.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/event_button.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./prim_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./prim_list.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./util.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./builder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./builder.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_type_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./glwin_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./glwin_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./convert.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./convert.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./input.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./input.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/panel_widget_container.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/panel_widget_container.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/io_profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_profile.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./value_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./value_util.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./scene.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./scene.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./converting_streams.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./converting_streams.hh +[ 1%] Built target ost_img_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./prim_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./prim_list.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/panel_bar_widget_holder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/panel_bar_widget_holder.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./vecmat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./vecmat.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/dcd_io.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./dcd_io.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_info_convert.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_info_convert.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./xcs_editor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./xcs_editor.hh +[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/quat.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/quat.cc.o -c /build/openstructure-2.2.0/modules/geom/src/quat.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bounding_box.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bounding_box.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./formatted_line.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./formatted_line.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./scene.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./scene.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/side_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/side_bar.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./transform.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./selection.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./selection.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_crd_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_crd_handler.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_prop.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/chemdict_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./chemdict_parser.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/splitter_panel_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/splitter_panel_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_pqr_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_pqr_handler.hh -[ 1%] Built target ost_img_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./surface.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./torsion_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./torsion_handle.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/star_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./star_parser.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/tabbed_panel_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/tabbed_panel_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_mae_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_mae_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./texture.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./texture.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./transfer_connectivity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./transfer_connectivity.hh -[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite3_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/composite3_op.cc.o -c /build/openstructure-2.2.0/modules/geom/src/composite3_op.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/mmcif_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./mmcif_reader.hh +[ 1%] Built target ost_mol_headers cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/context_menu.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/context_menu.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_mmcif_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_mmcif_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./vertex_array.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./vertex_array.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_view_wrapper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_view_wrapper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/mmcif_info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./mmcif_info.hh +[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/transform.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/transform.cc.o -c /build/openstructure-2.2.0/modules/geom/src/transform.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/current_selection_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/current_selection_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./vertex_array_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./vertex_array_helper.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/custom_part_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/custom_part_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_type_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/io_profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_profile.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./scene_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./scene_observer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_pdb_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_pdb_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/entity_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./xcs_editor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./xcs_editor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_writer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/custom_part_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/custom_part_node.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gl_include.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gl_include.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bounding_box.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bounding_box.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_sdf_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_sdf_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_part_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/entity_part_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./transform.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/dcd_io.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./dcd_io.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/entity_node.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./glext_include.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./glext_include.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/sdf_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sdf_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_part_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/entity_part_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_crd_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_crd_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./render_mode.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./render_mode.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/gfx_scene_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/gfx_scene_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/sdf_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sdf_writer.hh -[ 1%] Built target ost_mol_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/save_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./save_entity.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/label_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/label_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_pqr_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_pqr_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./material.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./material.hh -[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/quat.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/quat.cc.o -c /build/openstructure-2.2.0/modules/geom/src/quat.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/load_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_entity.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/root_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/root_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/label_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/label_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_mae_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_mae_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_mmcif_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_mmcif_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gradient.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gradient.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/surface_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./surface_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/render_mode_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/render_mode_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/load_surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_surface.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/root_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/root_node.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gradient_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gradient_manager.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/render_modes_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/render_modes_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/surface_io_msms_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./surface_io_msms_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_str.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_str.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/render_mode_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/render_mode_node.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_win.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/stereochemical_params_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./stereochemical_params_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_pdb_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_pdb_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/render_modes_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/render_modes_node.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./primitives.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./primitives.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win_model.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_win_model.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/sequence_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sequence_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./povray_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./povray_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/message_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/message_widget.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/fasta_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./fasta_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/message_box_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/message_box_widget.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_writer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./povray.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./povray.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/pir_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pir_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/log_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/log_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_sdf_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_sdf_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_win.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./exporter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./exporter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/promod_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./promod_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/sdf_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sdf_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win_model.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_win_model.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./exporter_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./exporter_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/argand.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/argand.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/sdf_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sdf_writer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/message_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/message_widget.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gost_exporter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gost_exporter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/profile_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./profile_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/save_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./save_entity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/message_box_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/message_box_widget.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./color_ops/map_handle_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_handle_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/load_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_entity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/log_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/log_reader.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./map_iso.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_iso.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/hhm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./hhm_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer_panel.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/argand.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/argand.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/surface_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./surface_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./map_slab.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_slab.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/pssm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pssm_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer_panel_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./map_iso_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_iso_prop.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/clustal_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./clustal_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/draw_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/draw_overlay.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/load.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/load_surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_surface.hh make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/save.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./save.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/drawing_functions.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/drawing_functions.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer_panel.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/surface_io_msms_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./surface_io_msms_handler.hh [ 1%] Built target ost_gfx_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/load_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_map.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer_panel_base.hh +[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_str.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_str.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o -c /build/openstructure-2.2.0/modules/geom/src/aligned_cuboid.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/stereochemical_params_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./stereochemical_params_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/draw_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/draw_overlay.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/sequence_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sequence_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/drawing_functions.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/drawing_functions.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/fasta_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./fasta_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/fft_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/fft_panel.hh -[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/transform.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_df3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_df3_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/transform.cc.o -c /build/openstructure-2.2.0/modules/geom/src/transform.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/pir_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pir_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/info_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/info_panel.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/image_format.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./image_format.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_dx_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_dx_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/promod_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./promod_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/img2qt.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/img2qt.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/profile_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./profile_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/mask_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/mask_overlay.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_spi_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_spi_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/hhm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./hhm_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/pssm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pssm_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/null_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/null_overlay.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_situs_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_situs_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/clustal_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./clustal_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/load.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_mrc_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_mrc_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/save.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./save.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_base_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_base_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_dat_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_dat_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/load_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_map.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_df3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_df3_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_manager.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_ipl_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_ipl_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/image_format.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./image_format.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_manager_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_jpk_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_jpk_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_dx_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_dx_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager_gui.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_manager_gui.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_nanoscope_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_nanoscope_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_manager_observer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_png_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_png_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_spi_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_spi_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/pointlist_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/pointlist_overlay.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_dm3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_dm3_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_situs_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_situs_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/pointlist_overlay_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/pointlist_overlay_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_tiff_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_tiff_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/strategies.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/strategies.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/tiff_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./tiff_util.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/strategies_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/strategies_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/jpk_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./jpk_util.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_mrc_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_mrc_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/viewer_normalizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/viewer_normalizer.hh -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 1%] Built target ost_io_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_dat_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_dat_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./file_browser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./file_browser.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_ipl_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_ipl_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./file_type_dialog.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./file_type_dialog.hh -[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./file_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./file_viewer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o -c /build/openstructure-2.2.0/modules/geom/src/aligned_cuboid.cc -[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/point_cloud.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/point_cloud.cc.o -c /build/openstructure-2.2.0/modules/geom/src/point_cloud.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_jpk_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_jpk_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_nanoscope_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_nanoscope_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./gl_canvas.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./gl_canvas.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./gl_win.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./gl_win.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_png_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_png_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./scene_menu.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./scene_menu.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_dm3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_dm3_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./gosty_app.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./gosty_app.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./admin.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./admin.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_tiff_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_tiff_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/tiff_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./tiff_util.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/jpk_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./jpk_util.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./main.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./main.hh +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./main_area.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./main_area.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./perspective.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./perspective.hh +[ 1%] Built target ost_io_headers +[ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/point_cloud.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_geom.dir/point_cloud.cc.o -c /build/openstructure-2.2.0/modules/geom/src/point_cloud.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./scene_selection.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./scene_selection.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./main_window.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./main_window.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./dock_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./dock_widget.hh @@ -3811,61 +3846,61 @@ make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 1%] Built target ost_geom make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/depend -make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base.dir/DependInfo.cmake --color= +make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/_ost_geom.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/_ost_geom.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base.dir/depend.internal". Scanning dependencies of target ost_base make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/_ost_geom.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend.internal". -[ 1%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/generic_property.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/generic_property.cc.o -c /build/openstructure-2.2.0/modules/base/src/generic_property.cc Scanning dependencies of target _ost_geom +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/build -[ 1%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o -c /build/openstructure-2.2.0/modules/base/src/boost_filesystem_helper.cc -[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/log_sink.cc.o -[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/string_ref.cc.o -[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/units.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/log_sink.cc.o -c /build/openstructure-2.2.0/modules/base/src/log_sink.cc -[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/message.cc.o -[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/profile.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/units.cc.o -c /build/openstructure-2.2.0/modules/base/src/units.cc -[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/platform.cc.o -[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/log.cc.o +[ 1%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec2.cc.o +[ 1%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/generic_property.cc.o +[ 1%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/log.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/log.cc.o -c /build/openstructure-2.2.0/modules/base/src/log.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/profile.cc.o -c /build/openstructure-2.2.0/modules/base/src/profile.cc -[ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec3.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_vec3.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_vec3.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/string_ref.cc.o -c /build/openstructure-2.2.0/modules/base/src/string_ref.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/platform.cc.o -c /build/openstructure-2.2.0/modules/base/src/platform.cc -[ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec2.cc.o +[ 1%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_vec2.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_vec2.cc -[ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/message.cc.o -c /build/openstructure-2.2.0/modules/base/src/message.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/generic_property.cc.o -c /build/openstructure-2.2.0/modules/base/src/generic_property.cc +[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/log_sink.cc.o +[ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec3.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_vecmat2_op.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/log_sink.cc.o -c /build/openstructure-2.2.0/modules/base/src/log_sink.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_vec3.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_vec3.cc [ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o -[ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec4.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_vec4.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_vec4.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o -c /build/openstructure-2.2.0/modules/base/src/test_utils/compare_files.cc +[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/profile.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_vecmat3_op.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/profile.cc.o -c /build/openstructure-2.2.0/modules/base/src/profile.cc [ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o +[ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec4.cc.o +[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/units.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_vec4.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_vec4.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/units.cc.o -c /build/openstructure-2.2.0/modules/base/src/units.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_vecmat4_op.cc +[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/string_ref.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/string_ref.cc.o -c /build/openstructure-2.2.0/modules/base/src/string_ref.cc [ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/wrap_geom.cc.o -[ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat2.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/wrap_geom.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/wrap_geom.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_mat2.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_mat2.cc +[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/platform.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/platform.cc.o -c /build/openstructure-2.2.0/modules/base/src/platform.cc [ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat3.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_mat3.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_mat3.cc +[ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat2.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_mat2.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_mat2.cc +[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/message.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/message.cc.o -c /build/openstructure-2.2.0/modules/base/src/message.cc +[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o -c /build/openstructure-2.2.0/modules/base/src/test_utils/compare_files.cc +[ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o -c /build/openstructure-2.2.0/modules/base/src/boost_filesystem_helper.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat4.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_mat4.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_mat4.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2.cc.o @@ -3876,6 +3911,8 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_composite2_op.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_composite3_op.cc +[ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_quat.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_quat.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_quat.cc [ 3%] Linking CXX shared library ../../../stage/lib/libost_base.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_base.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_base.so.2.2 -o ../../../stage/lib/libost_base.so.2.2.0 CMakeFiles/ost_base.dir/generic_property.cc.o CMakeFiles/ost_base.dir/log.cc.o CMakeFiles/ost_base.dir/log_sink.cc.o CMakeFiles/ost_base.dir/profile.cc.o CMakeFiles/ost_base.dir/units.cc.o CMakeFiles/ost_base.dir/string_ref.cc.o CMakeFiles/ost_base.dir/platform.cc.o CMakeFiles/ost_base.dir/message.cc.o CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so @@ -3906,7 +3943,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_vecmat4_op.cc:20: + from /build/openstructure-2.2.0/modules/geom/pymod/export_mat3.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -3926,7 +3963,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_vec2.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/export_mat2.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -3946,7 +3983,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_vecmat2_op.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/wrap_geom.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -3970,6 +4007,9 @@ /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3983,16 +4023,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_vecmat3_op.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/export_vec2.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4026,7 +4063,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/wrap_geom.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/export_composite2_op.cc:21: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -4046,7 +4083,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_composite3.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/export_vecmat2_op.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -4066,7 +4103,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_mat3.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/export_vecmat4_op.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -4086,7 +4123,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_mat2.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/export_composite3.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -4106,13 +4143,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_mat4.cc:20: + from /build/openstructure-2.2.0/modules/geom/pymod/export_composite3_op.cc:21: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_transform.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_transform.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_transform.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4126,7 +4165,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_composite2.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/export_mat4.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -4146,13 +4185,19 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_composite3_op.cc:21: + from /build/openstructure-2.2.0/modules/geom/pymod/export_vecmat3_op.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_handle.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_handle.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_handle.cc +[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_group.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_group.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_group.cc +[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_item.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_item.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_item.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4166,33 +4211,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_composite2_op.cc:21: + from /build/openstructure-2.2.0/modules/geom/pymod/export_composite2.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_quat.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_quat.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_quat.cc -[ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_transform.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_geom.dir/export_transform.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_transform.cc -[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_handle.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_handle.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_handle.cc -[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_group.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_group.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_group.cc -[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_item.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_item.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_item.cc [ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_path.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_path.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_path.cc -[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_set.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_set.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_set.cc -[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_visitor.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_visitor.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_visitor.cc -[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/geom_info_conversion.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/geom_info_conversion.cc.o -c /build/openstructure-2.2.0/modules/info/src/geom_info_conversion.cc -[ 5%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_verbose_visitor.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4206,13 +4233,21 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_quat.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/export_transform.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_set.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_set.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_set.cc +[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_visitor.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_visitor.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_visitor.cc +[ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/geom_info_conversion.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/geom_info_conversion.cc.o -c /build/openstructure-2.2.0/modules/info/src/geom_info_conversion.cc +[ 5%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_verbose_visitor.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4226,7 +4261,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/geom/pymod/export_transform.cc:19: + from /build/openstructure-2.2.0/modules/geom/pymod/export_quat.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -4240,74 +4275,53 @@ make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 5%] Built target ost_info make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake --color= make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/depend.internal". +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake --color= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/depend.internal". Scanning dependencies of target ost_img make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 5%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/circle_mask.cc.o -[ 5%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data_algorithm.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/circle_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/circle_mask.cc [ 5%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/composite_mask.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/composite_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/composite_mask.cc +[ 5%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/circle_mask.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/circle_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/circle_mask.cc +[ 5%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data_algorithm.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/data_algorithm.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/data_algorithm.cc [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data_observer.cc.o [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/data_observer.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/data_observer.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/data.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/data.cc -Scanning dependencies of target ost_mol -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/build +[ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent_mask.cc.o [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent_iterator.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/extent_iterator.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/extent_iterator.cc -[ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent_mask.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/extent_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/extent_mask.cc -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/extent_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/extent_mask.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/extent.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/extent.cc +[ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_handle.cc.o [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_factory.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/image_factory.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/image_factory.cc -[ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_handle.cc.o -[ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_handle.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/image_handle.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/image_handle.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/atom_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/atom_handle.cc -[ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_view.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/atom_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/atom_view.cc -[ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_base.cc.o [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_impl.cc.o +[ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/inverted_mask.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/image_impl.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/image_impl.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/atom_base.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/atom_base.cc -[ 6%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/geom/_ost_geom.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_geom.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/geom/_ost_geom.so CMakeFiles/_ost_geom.dir/export_vec2.cc.o CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o CMakeFiles/_ost_geom.dir/export_vec3.cc.o CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o CMakeFiles/_ost_geom.dir/export_vec4.cc.o CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o CMakeFiles/_ost_geom.dir/wrap_geom.cc.o CMakeFiles/_ost_geom.dir/export_mat2.cc.o CMakeFiles/_ost_geom.dir/export_mat3.cc.o CMakeFiles/_ost_geom.dir/export_mat4.cc.o CMakeFiles/_ost_geom.dir/export_composite2.cc.o CMakeFiles/_ost_geom.dir/export_composite3.cc.o CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o CMakeFiles/_ost_geom.dir/export_quat.cc.o CMakeFiles/_ost_geom.dir/export_transform.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/inverted_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/inverted_mask.cc [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_list.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/image_list.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/image_list.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/geom/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/geom/./__init__.pyc\",\"__init__.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 6%] Built target _ost_geom -make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/depend.internal". -Scanning dependencies of target _ost_base -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 6%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/wrap_base.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_base.dir/wrap_base.cc.o -c /build/openstructure-2.2.0/modules/base/pymod/wrap_base.cc -[ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/inverted_mask.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/inverted_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/inverted_mask.cc [ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/map.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/map.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/map.cc +Scanning dependencies of target ost_mol +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 7%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_base.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/atom_base.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/atom_base.cc [ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_base.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/mask_base.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/mask_base.cc [ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_op.cc.o @@ -4316,110 +4330,140 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/mask.cc [ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/observable.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/observable.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/observable.cc +[ 7%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_handle.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/atom_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/atom_handle.cc [ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/paste_impl.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/paste_impl.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/paste_impl.cc [ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/peak.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/peak.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/peak.cc -[ 7%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/bond_handle.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/bond_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/bond_handle.cc -[ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_base.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/chain_base.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/chain_base.cc -[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/phase.cc.o +[ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/phase.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/phase.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/phase.cc -[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/physical_units.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/physical_units.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/physical_units.cc -[ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_handle.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/chain_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/chain_handle.cc -[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/pixel_sampling.cc.o +[ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/physical_units.cc.o +[ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/pixel_sampling.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/pixel_sampling.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/pixel_sampling.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/point_list.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/physical_units.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/physical_units.cc +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/point_list.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/point_list.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/point_list.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/point.cc.o +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/point.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/point.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/point.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/polygon_mask.cc.o +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/polygon_mask.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/polygon_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/polygon_mask.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/progress.cc.o +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/progress.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/progress.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/progress.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/size.cc.o +[ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_view.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/atom_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/atom_view.cc +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/size.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/size.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/size.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/spherical_mask.cc.o +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/spherical_mask.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/spherical_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/spherical_mask.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_info_convert.cc.o +[ 8%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/geom/_ost_geom.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_geom.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/geom/_ost_geom.so CMakeFiles/_ost_geom.dir/export_vec2.cc.o CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o CMakeFiles/_ost_geom.dir/export_vec3.cc.o CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o CMakeFiles/_ost_geom.dir/export_vec4.cc.o CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o CMakeFiles/_ost_geom.dir/wrap_geom.cc.o CMakeFiles/_ost_geom.dir/export_mat2.cc.o CMakeFiles/_ost_geom.dir/export_mat3.cc.o CMakeFiles/_ost_geom.dir/export_mat4.cc.o CMakeFiles/_ost_geom.dir/export_composite2.cc.o CMakeFiles/_ost_geom.dir/export_composite3.cc.o CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o CMakeFiles/_ost_geom.dir/export_quat.cc.o CMakeFiles/_ost_geom.dir/export_transform.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_info_convert.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/mask_info_convert.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/mask_info_convert.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_factory.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/index.cc.o +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/index.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/image_state/index.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/image_state/index.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_base.cc -[ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o +[ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o +[ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/bond_handle.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/raster_image/raster_image.cc -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/base/pymod/wrap_base.cc:19: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/bond_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/bond_handle.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/geom/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/geom/./__init__.pyc\",\"__init__.py\",doraise=True)" +[ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_base.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/chain_base.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/chain_base.cc +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 10%] Built target _ost_geom +make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/depend.internal". +Scanning dependencies of target _ost_base +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 10%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/wrap_base.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_base.dir/wrap_base.cc.o -c /build/openstructure-2.2.0/modules/base/pymod/wrap_base.cc +[ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_handle.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/chain_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/chain_handle.cc +[ 10%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_logger.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_base.dir/export_logger.cc.o -c /build/openstructure-2.2.0/modules/base/pymod/export_logger.cc +[ 10%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_range.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_base.dir/export_range.cc.o -c /build/openstructure-2.2.0/modules/base/pymod/export_range.cc +[ 10%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_units.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_base.dir/export_units.cc.o -c /build/openstructure-2.2.0/modules/base/pymod/export_units.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_view.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/chain_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/chain_view.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_type.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/chain_type.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/chain_type.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_frame.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/coord_frame.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/coord_frame.cc +In file included from /usr/include/boost/bind.hpp:30, + from /build/openstructure-2.2.0/modules/mol/base/src/chain_view.cc:21: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_group.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/coord_group.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/coord_group.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/editor_base.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/editor_base.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/editor_base.cc -[ 10%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_logger.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_base.dir/export_logger.cc.o -c /build/openstructure-2.2.0/modules/base/pymod/export_logger.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_base.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/entity_base.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/entity_base.cc -[ 10%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_range.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_base.dir/export_range.cc.o -c /build/openstructure-2.2.0/modules/base/pymod/export_range.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_handle.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/entity_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/entity_handle.cc -In file included from /usr/include/boost/bind.hpp:30, - from /build/openstructure-2.2.0/modules/mol/base/src/chain_view.cc:21: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_observer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/entity_observer.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/entity_observer.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/entity_property_mapper.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_view.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/entity_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/entity_view.cc -In file included from /usr/include/boost/bind.hpp:30, - from /build/openstructure-2.2.0/modules/mol/base/src/entity_view.cc:25: +[ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_visitor.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/entity_visitor.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/entity_visitor.cc +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/base/pymod/export_range.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_visitor.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/entity_visitor.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/entity_visitor.cc +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/base/pymod/export_logger.cc:19: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/ics_editor.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/ics_editor.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/ics_editor.cc -[ 11%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_units.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/_ost_base.dir/export_units.cc.o -c /build/openstructure-2.2.0/modules/base/pymod/export_units.cc -[ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/not_connected_error.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/not_connected_error.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/not_connected_error.cc -[ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/property_id.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/property_id.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/property_id.cc -[ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/query.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/query.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4433,13 +4477,20 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/base/pymod/export_range.cc:19: + from /build/openstructure-2.2.0/modules/base/pymod/wrap_base.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/bind.hpp:30, + from /build/openstructure-2.2.0/modules/mol/base/src/entity_view.cc:25: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +[ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/not_connected_error.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/not_connected_error.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/not_connected_error.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4453,13 +4504,17 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/base/pymod/export_logger.cc:19: + from /build/openstructure-2.2.0/modules/base/pymod/export_units.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/property_id.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/property_id.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/property_id.cc +[ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/query.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/query.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_error.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/query_error.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/query_error.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_state.cc.o @@ -4474,20 +4529,24 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/surface_builder.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/surface_builder.cc [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_handle.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/surface_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/surface_handle.cc -[ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/transfer_connectivity.cc -[ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/torsion_handle.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/torsion_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/torsion_handle.cc In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.2.0/modules/mol/base/src/residue_view.cc:22: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/query_view_wrapper.cc [ 14%] Linking CXX shared library ../../../../stage/lib/libost_img.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_img.so.2.2 -o ../../../../stage/lib/libost_img.so.2.2.0 CMakeFiles/ost_img.dir/circle_mask.cc.o CMakeFiles/ost_img.dir/composite_mask.cc.o CMakeFiles/ost_img.dir/data_algorithm.cc.o CMakeFiles/ost_img.dir/data_observer.cc.o CMakeFiles/ost_img.dir/data.cc.o CMakeFiles/ost_img.dir/extent_iterator.cc.o CMakeFiles/ost_img.dir/extent_mask.cc.o CMakeFiles/ost_img.dir/extent.cc.o CMakeFiles/ost_img.dir/image_factory.cc.o CMakeFiles/ost_img.dir/image_handle.cc.o CMakeFiles/ost_img.dir/image_impl.cc.o CMakeFiles/ost_img.dir/image_list.cc.o CMakeFiles/ost_img.dir/inverted_mask.cc.o CMakeFiles/ost_img.dir/map.cc.o CMakeFiles/ost_img.dir/mask_base.cc.o CMakeFiles/ost_img.dir/mask_op.cc.o CMakeFiles/ost_img.dir/mask.cc.o CMakeFiles/ost_img.dir/observable.cc.o CMakeFiles/ost_img.dir/paste_impl.cc.o CMakeFiles/ost_img.dir/peak.cc.o CMakeFiles/ost_img.dir/phase.cc.o CMakeFiles/ost_img.dir/physical_units.cc.o CMakeFiles/ost_img.dir/pixel_sampling.cc.o CMakeFiles/ost_img.dir/point_list.cc.o CMakeFiles/ost_img.dir/point.cc.o CMakeFiles/ost_img.dir/polygon_mask.cc.o CMakeFiles/ost_img.dir/progress.cc.o CMakeFiles/ost_img.dir/size.cc.o CMakeFiles/ost_img.dir/spherical_mask.cc.o CMakeFiles/ost_img.dir/mask_info_convert.cc.o CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o CMakeFiles/ost_img.dir/image_state/index.cc.o CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 +[ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/transfer_connectivity.cc +[ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/torsion_handle.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/torsion_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/torsion_handle.cc +[ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/query_view_wrapper.cc +[ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/view_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/view_op.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/view_op.cc +[ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_source.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/coord_source.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/coord_source.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_img.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2 ../../../../stage/lib/libost_img.so make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 14%] Built target ost_img @@ -4502,50 +4561,28 @@ make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 14%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/anisotropic.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/anisotropic.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/anisotropic.cc -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/base/pymod/export_units.cc:25: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/view_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/view_op.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/view_op.cc -[ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_source.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/coord_source.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/coord_source.cc [ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/in_mem_coord_source.cc [ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/bounding_box.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/bounding_box.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/bounding_box.cc [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/xcs_editor.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/xcs_editor.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/xcs_editor.cc -[ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl.cc [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl.cc +[ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl.cc [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/connector_impl.cc [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/dihedral.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/impl/dihedral.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/dihedral.cc +[ 15%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/auto_correlate.cc +[ 15%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/convolute.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/convolute.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/convolute.cc [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/entity_impl.cc [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/fragment_impl.cc -[ 15%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/auto_correlate.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4584,14 +4621,14 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/torsion_impl.cc [ 16%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_prop.cc -[ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/convolute.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/convolute.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/convolute.cc [ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/correlate.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/correlate.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/correlate.cc [ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/cross_correlate.cc [ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/density_slice.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/density_slice.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/density_slice.cc +[ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/dft.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/dft.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/dft.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4605,8 +4642,6 @@ /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/dft.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/dft.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/dft.cc [ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fft.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/fft.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/fft.cc [ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o @@ -4653,26 +4688,26 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/alg_mirror.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_shift.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/alg_shift.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/alg_shift.cc -[ 19%] Linking CXX shared library ../../../../stage/lib/libost_mol.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_mol.so.2.2 -o ../../../../stage/lib/libost_mol.so.2.2.0 CMakeFiles/ost_mol.dir/atom_base.cc.o CMakeFiles/ost_mol.dir/atom_handle.cc.o CMakeFiles/ost_mol.dir/atom_view.cc.o CMakeFiles/ost_mol.dir/bond_handle.cc.o CMakeFiles/ost_mol.dir/chain_base.cc.o CMakeFiles/ost_mol.dir/chain_handle.cc.o CMakeFiles/ost_mol.dir/chain_view.cc.o CMakeFiles/ost_mol.dir/chain_type.cc.o CMakeFiles/ost_mol.dir/coord_frame.cc.o CMakeFiles/ost_mol.dir/coord_group.cc.o CMakeFiles/ost_mol.dir/editor_base.cc.o CMakeFiles/ost_mol.dir/entity_base.cc.o CMakeFiles/ost_mol.dir/entity_handle.cc.o CMakeFiles/ost_mol.dir/entity_observer.cc.o CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o CMakeFiles/ost_mol.dir/entity_view.cc.o CMakeFiles/ost_mol.dir/entity_visitor.cc.o CMakeFiles/ost_mol.dir/ics_editor.cc.o CMakeFiles/ost_mol.dir/not_connected_error.cc.o CMakeFiles/ost_mol.dir/property_id.cc.o CMakeFiles/ost_mol.dir/query.cc.o CMakeFiles/ost_mol.dir/query_error.cc.o CMakeFiles/ost_mol.dir/query_state.cc.o CMakeFiles/ost_mol.dir/residue_base.cc.o CMakeFiles/ost_mol.dir/residue_handle.cc.o CMakeFiles/ost_mol.dir/residue_view.cc.o CMakeFiles/ost_mol.dir/surface_builder.cc.o CMakeFiles/ost_mol.dir/surface_handle.cc.o CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o CMakeFiles/ost_mol.dir/torsion_handle.cc.o CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o CMakeFiles/ost_mol.dir/view_op.cc.o CMakeFiles/ost_mol.dir/coord_source.cc.o CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o CMakeFiles/ost_mol.dir/bounding_box.cc.o CMakeFiles/ost_mol.dir/xcs_editor.cc.o CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o CMakeFiles/ost_mol.dir/impl/dihedral.cc.o CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o CMakeFiles/ost_mol.dir/impl/query_ast.cc.o CMakeFiles/ost_mol.dir/impl/query_impl.cc.o CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 [ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/threshold.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/threshold.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/threshold.cc -[ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformation_base.cc.o [ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/transformation_base.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/transformation_base.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/discrete_shrink.cc -[ 20%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/_ost_base.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_base.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/_ost_base.so CMakeFiles/_ost_base.dir/wrap_base.cc.o CMakeFiles/_ost_base.dir/export_logger.cc.o CMakeFiles/_ost_base.dir/export_range.cc.o CMakeFiles/_ost_base.dir/export_units.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_base.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so +[ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformation_base.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/transformation_base.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/transformation_base.cc [ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformations.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/transformations.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/transformations.cc [ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/fractional_shift.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/settings.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./settings.pyc\",\"settings.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/stutil.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./stutil.pyc\",\"stutil.py\",doraise=True)" +[ 20%] Linking CXX shared library ../../../../stage/lib/libost_mol.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_mol.so.2.2 -o ../../../../stage/lib/libost_mol.so.2.2.0 CMakeFiles/ost_mol.dir/atom_base.cc.o CMakeFiles/ost_mol.dir/atom_handle.cc.o CMakeFiles/ost_mol.dir/atom_view.cc.o CMakeFiles/ost_mol.dir/bond_handle.cc.o CMakeFiles/ost_mol.dir/chain_base.cc.o CMakeFiles/ost_mol.dir/chain_handle.cc.o CMakeFiles/ost_mol.dir/chain_view.cc.o CMakeFiles/ost_mol.dir/chain_type.cc.o CMakeFiles/ost_mol.dir/coord_frame.cc.o CMakeFiles/ost_mol.dir/coord_group.cc.o CMakeFiles/ost_mol.dir/editor_base.cc.o CMakeFiles/ost_mol.dir/entity_base.cc.o CMakeFiles/ost_mol.dir/entity_handle.cc.o CMakeFiles/ost_mol.dir/entity_observer.cc.o CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o CMakeFiles/ost_mol.dir/entity_view.cc.o CMakeFiles/ost_mol.dir/entity_visitor.cc.o CMakeFiles/ost_mol.dir/ics_editor.cc.o CMakeFiles/ost_mol.dir/not_connected_error.cc.o CMakeFiles/ost_mol.dir/property_id.cc.o CMakeFiles/ost_mol.dir/query.cc.o CMakeFiles/ost_mol.dir/query_error.cc.o CMakeFiles/ost_mol.dir/query_state.cc.o CMakeFiles/ost_mol.dir/residue_base.cc.o CMakeFiles/ost_mol.dir/residue_handle.cc.o CMakeFiles/ost_mol.dir/residue_view.cc.o CMakeFiles/ost_mol.dir/surface_builder.cc.o CMakeFiles/ost_mol.dir/surface_handle.cc.o CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o CMakeFiles/ost_mol.dir/torsion_handle.cc.o CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o CMakeFiles/ost_mol.dir/view_op.cc.o CMakeFiles/ost_mol.dir/coord_source.cc.o CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o CMakeFiles/ost_mol.dir/bounding_box.cc.o CMakeFiles/ost_mol.dir/xcs_editor.cc.o CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o CMakeFiles/ost_mol.dir/impl/dihedral.cc.o CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o CMakeFiles/ost_mol.dir/impl/query_ast.cc.o CMakeFiles/ost_mol.dir/impl/query_impl.cc.o CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 +[ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/polar.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/polar.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/polar.cc +[ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/rscrosscorr.cc +[ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_average.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/line_average.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/line_average.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_mol.so.2.2 ../../../../stage/lib/libost_mol.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/table.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./table.pyc\",\"table.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 20%] Built target ost_mol make -f modules/seq/base/src/CMakeFiles/ost_seq.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq.dir/depend @@ -4680,60 +4715,63 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq.dir/DependInfo.cmake --color= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq.dir/depend.internal". -[ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/polar.cc.o Scanning dependencies of target ost_seq -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/polar.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/polar.cc make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/seq/base/src/CMakeFiles/ost_seq.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/table_selector.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./table_selector.pyc\",\"table_selector.py\",doraise=True)" [ 20%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_impl.cc -[ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/rscrosscorr.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/xmlrunner.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./xmlrunner.pyc\",\"xmlrunner.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/testutils.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./testutils.pyc\",\"testutils.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 20%] Built target _ost_base -make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/info/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/_ost_info.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/_ost_info.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/_ost_info.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/_ost_info.dir/depend.internal". -Scanning dependencies of target _ost_info -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 21%] Building CXX object modules/info/pymod/CMakeFiles/_ost_info.dir/wrap_info.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_info.dir/wrap_info.cc.o -c /build/openstructure-2.2.0/modules/info/pymod/wrap_info.cc -[ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_average.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_img_alg.dir/line_average.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/line_average.cc -[ 21%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl.cc -[ 21%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_handle.cc.o +[ 20%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_handle.cc.o +[ 20%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_region.cc.o +[ 20%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/sequence_handle.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/sequence_handle.cc -[ 21%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_region.cc.o +[ 20%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_column.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl.cc +[ 20%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_list.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/aligned_region.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/aligned_region.cc -[ 21%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_column.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/aligned_column.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/aligned_column.cc -[ 21%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_list.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/sequence_list.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/sequence_list.cc -[ 21%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/alignment_handle.cc.o +[ 20%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/alignment_handle.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/alignment_handle.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/alignment_handle.cc -[ 21%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_op.cc.o +[ 20%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_op.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/sequence_op.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/sequence_op.cc -[ 21%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/views_from_sequences.cc.o +[ 20%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/views_from_sequences.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/views_from_sequences.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/views_from_sequences.cc -[ 23%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/profile_handle.cc.o +[ 21%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/profile_handle.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq.dir/profile_handle.cc.o -c /build/openstructure-2.2.0/modules/seq/base/src/profile_handle.cc +[ 21%] Linking CXX shared library ../../../../stage/lib/libost_img_alg.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img_alg.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_img_alg.so.2.2 -o ../../../../stage/lib/libost_img_alg.so.2.2.0 CMakeFiles/ost_img_alg.dir/anisotropic.cc.o CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o CMakeFiles/ost_img_alg.dir/convolute.cc.o CMakeFiles/ost_img_alg.dir/correlate.cc.o CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o CMakeFiles/ost_img_alg.dir/density_slice.cc.o CMakeFiles/ost_img_alg.dir/dft.cc.o CMakeFiles/ost_img_alg.dir/fft.cc.o CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o CMakeFiles/ost_img_alg.dir/gaussian.cc.o CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o CMakeFiles/ost_img_alg.dir/histogram.cc.o CMakeFiles/ost_img_alg.dir/line_iterator.cc.o CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o CMakeFiles/ost_img_alg.dir/mask_image.cc.o CMakeFiles/ost_img_alg.dir/normalizer.cc.o CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o CMakeFiles/ost_img_alg.dir/norm_linear.cc.o CMakeFiles/ost_img_alg.dir/norm_log.cc.o CMakeFiles/ost_img_alg.dir/norm_od.cc.o CMakeFiles/ost_img_alg.dir/power_spectrum.cc.o CMakeFiles/ost_img_alg.dir/randomize.cc.o CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o CMakeFiles/ost_img_alg.dir/stat.cc.o CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o CMakeFiles/ost_img_alg.dir/alg_transform.cc.o CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o CMakeFiles/ost_img_alg.dir/alg_shift.cc.o CMakeFiles/ost_img_alg.dir/threshold.cc.o CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o CMakeFiles/ost_img_alg.dir/transformation_base.cc.o CMakeFiles/ost_img_alg.dir/transformations.cc.o CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o CMakeFiles/ost_img_alg.dir/polar.cc.o CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o CMakeFiles/ost_img_alg.dir/line_average.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.2.0/modules/seq/base/src/sequence_op.cc:22: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 23%] Linking CXX shared library ../../../../stage/lib/libost_img_alg.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img_alg.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_img_alg.so.2.2 -o ../../../../stage/lib/libost_img_alg.so.2.2.0 CMakeFiles/ost_img_alg.dir/anisotropic.cc.o CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o CMakeFiles/ost_img_alg.dir/convolute.cc.o CMakeFiles/ost_img_alg.dir/correlate.cc.o CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o CMakeFiles/ost_img_alg.dir/density_slice.cc.o CMakeFiles/ost_img_alg.dir/dft.cc.o CMakeFiles/ost_img_alg.dir/fft.cc.o CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o CMakeFiles/ost_img_alg.dir/gaussian.cc.o CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o CMakeFiles/ost_img_alg.dir/histogram.cc.o CMakeFiles/ost_img_alg.dir/line_iterator.cc.o CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o CMakeFiles/ost_img_alg.dir/mask_image.cc.o CMakeFiles/ost_img_alg.dir/normalizer.cc.o CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o CMakeFiles/ost_img_alg.dir/norm_linear.cc.o CMakeFiles/ost_img_alg.dir/norm_log.cc.o CMakeFiles/ost_img_alg.dir/norm_od.cc.o CMakeFiles/ost_img_alg.dir/power_spectrum.cc.o CMakeFiles/ost_img_alg.dir/randomize.cc.o CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o CMakeFiles/ost_img_alg.dir/stat.cc.o CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o CMakeFiles/ost_img_alg.dir/alg_transform.cc.o CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o CMakeFiles/ost_img_alg.dir/alg_shift.cc.o CMakeFiles/ost_img_alg.dir/threshold.cc.o CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o CMakeFiles/ost_img_alg.dir/transformation_base.cc.o CMakeFiles/ost_img_alg.dir/transformations.cc.o CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o CMakeFiles/ost_img_alg.dir/polar.cc.o CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o CMakeFiles/ost_img_alg.dir/line_average.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 +[ 21%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/_ost_base.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_base.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/_ost_base.so CMakeFiles/_ost_base.dir/wrap_base.cc.o CMakeFiles/_ost_base.dir/export_logger.cc.o CMakeFiles/_ost_base.dir/export_range.cc.o CMakeFiles/_ost_base.dir/export_units.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_base.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/settings.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./settings.pyc\",\"settings.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/stutil.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./stutil.pyc\",\"stutil.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/table.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./table.pyc\",\"table.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/table_selector.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./table_selector.pyc\",\"table_selector.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/xmlrunner.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./xmlrunner.pyc\",\"xmlrunner.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/base/pymod/testutils.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/./testutils.pyc\",\"testutils.py\",doraise=True)" +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 21%] Built target _ost_base +make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/info/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/_ost_info.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/_ost_info.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/_ost_info.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/_ost_info.dir/depend.internal". +Scanning dependencies of target _ost_info +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 23%] Building CXX object modules/info/pymod/CMakeFiles/_ost_info.dir/wrap_info.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_info_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_info.dir/wrap_info.cc.o -c /build/openstructure-2.2.0/modules/info/pymod/wrap_info.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_img_alg.so.2.2 ../../../../stage/lib/libost_img_alg.so +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 23%] Built target ost_img_alg In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4754,9 +4792,6 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_img_alg.so.2.2 ../../../../stage/lib/libost_img_alg.so -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 23%] Built target ost_img_alg [ 23%] Linking CXX shared library ../../../../stage/lib/libost_seq.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_seq.so.2.2 -o ../../../../stage/lib/libost_seq.so.2.2.0 CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o CMakeFiles/ost_seq.dir/sequence_handle.cc.o CMakeFiles/ost_seq.dir/aligned_region.cc.o CMakeFiles/ost_seq.dir/aligned_column.cc.o CMakeFiles/ost_seq.dir/sequence_list.cc.o CMakeFiles/ost_seq.dir/alignment_handle.cc.o CMakeFiles/ost_seq.dir/sequence_op.cc.o CMakeFiles/ost_seq.dir/views_from_sequences.cc.o CMakeFiles/ost_seq.dir/profile_handle.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so @@ -4764,47 +4799,47 @@ make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 23%] Built target ost_seq make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings.dir/DependInfo.cmake --color= make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/DependInfo.cmake --color= make -f modules/db/src/CMakeFiles/ost_db.dir/build.make modules/db/src/CMakeFiles/ost_db.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings.dir/DependInfo.cmake --color= +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db.dir/DependInfo.cmake --color= +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/DependInfo.cmake --color= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/depend.internal". +Scanning dependencies of target ost_db Scanning dependencies of target ost_bindings -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db.dir/depend.internal". make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/build +make -f modules/db/src/CMakeFiles/ost_db.dir/build.make modules/db/src/CMakeFiles/ost_db.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Scanning dependencies of target ost_db make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/db/src/CMakeFiles/ost_db.dir/build.make modules/db/src/CMakeFiles/ost_db.dir/build +make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 23%] Building CXX object modules/bindings/src/CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src && /usr/bin/c++ -DOST_MODULE_OST_BINDINGS -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_bindings_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o -c /build/openstructure-2.2.0/modules/bindings/src/wrap_tmalign.cc [ 23%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/sqlite_wrap.cc.o -Scanning dependencies of target ost_seq_alg -[ 24%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/binary_container.cc.o -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/c++ -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_db.dir/sqlite_wrap.cc.o -c /build/openstructure-2.2.0/modules/db/src/sqlite_wrap.cc -make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build +[ 24%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/binary_container.cc.o [ 24%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/linear_indexer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/c++ -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_db.dir/linear_indexer.cc.o -c /build/openstructure-2.2.0/modules/db/src/linear_indexer.cc -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 24%] Building CXX object modules/bindings/src/CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src && /usr/bin/c++ -DOST_MODULE_OST_BINDINGS -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_bindings_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o -c /build/openstructure-2.2.0/modules/bindings/src/wrap_tmalign.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/c++ -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_db.dir/binary_container.cc.o -c /build/openstructure-2.2.0/modules/db/src/binary_container.cc [ 24%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/extract_data_helper.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/c++ -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_db.dir/extract_data_helper.cc.o -c /build/openstructure-2.2.0/modules/db/src/extract_data_helper.cc +Scanning dependencies of target ost_seq_alg +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 24%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/clip_alignment.cc [ 24%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/conservation.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/conservation.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/conservation.cc [ 24%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/conservation.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/conservation.cc [ 24%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/contact_prediction_score.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/contact_weight_matrix.cc @@ -4815,8 +4850,8 @@ [ 24%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/global_align.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/global_align.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/global_align.cc [ 24%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/ins_del.cc.o -[ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/local_align.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/ins_del.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/ins_del.cc +[ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/local_align.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/local_align.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/local_align.cc [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/merge_pairwise_alignments.cc @@ -4834,11 +4869,11 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/variance_map.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/variance_map.cc [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/hmm_pseudo_counts.cc +[ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/hmm_score.cc [ 25%] Linking CXX shared library ../../../stage/lib/libost_db.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_db.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_db.so.2.2 -o ../../../stage/lib/libost_db.so.2.2.0 CMakeFiles/ost_db.dir/sqlite_wrap.cc.o CMakeFiles/ost_db.dir/linear_indexer.cc.o CMakeFiles/ost_db.dir/binary_container.cc.o CMakeFiles/ost_db.dir/extract_data_helper.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 -[ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/hmm_score.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_db.so.2.2.0 ../../../stage/lib/libost_db.so.2.2 ../../../stage/lib/libost_db.so make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 25%] Built target ost_db @@ -4852,8 +4887,8 @@ make -f modules/conop/src/CMakeFiles/ost_conop.dir/build.make modules/conop/src/CMakeFiles/ost_conop.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 25%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/processor.cc.o -[ 25%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/amino_acids.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_conop.dir/processor.cc.o -c /build/openstructure-2.2.0/modules/conop/src/processor.cc +[ 25%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/amino_acids.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_conop.dir/amino_acids.cc.o -c /build/openstructure-2.2.0/modules/conop/src/amino_acids.cc [ 25%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/conop.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_conop.dir/conop.cc.o -c /build/openstructure-2.2.0/modules/conop/src/conop.cc @@ -4894,51 +4929,53 @@ make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 28%] Built target _ost_info make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/DependInfo.cmake --color= make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/_ost_img.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/depend.internal". +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/DependInfo.cmake --color= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/_ost_img.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/_ost_img.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/_ost_img.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/depend.internal". Scanning dependencies of target _ost_img make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 28%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_data.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_data.cc -Scanning dependencies of target _ost_mol [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_data_algorithm.cc -make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_extent.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_data.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_data.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_handle.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_data_algorithm.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_peak.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_extent.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_extent.cc -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_image_handle.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_image_handle.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_peak.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_peak.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_phase.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_phase.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_phase.cc -[ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom.cc.o -[ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom_view.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_atom.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_atom.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_peak.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_peak.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_point.cc.o -[ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bond.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_atom_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_atom_view.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_phase.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_phase.cc +[ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_progress.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_point.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_point.cc -[ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain_view.cc.o -[ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_progress.cc.o -[ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_bond.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_bond.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_progress.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_progress.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_chain.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_chain.cc -[ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_raster_image.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_chain_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_chain_view.cc +[ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_raster_image.cc.o +[ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_size.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_raster_image.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_raster_image.cc +[ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_mask.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_size.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_size.cc +[ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_list.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_mask.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_image_list.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_image_list.cc +[ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_map.cc.o +[ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/wrap_img.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_map.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_map.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/wrap_img.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/wrap_img.cc +Scanning dependencies of target _ost_mol +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_atom.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_atom.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4952,13 +4989,16 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_bond.cc:19: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_data.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 30%] Linking CXX shared library ../../../stage/lib/libost_conop.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_conop.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_conop.so.2.2 -o ../../../stage/lib/libost_conop.so.2.2.0 CMakeFiles/ost_conop.dir/processor.cc.o CMakeFiles/ost_conop.dir/amino_acids.cc.o CMakeFiles/ost_conop.dir/conop.cc.o CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o CMakeFiles/ost_conop.dir/compound_lib_base.cc.o CMakeFiles/ost_conop.dir/heuristic.cc.o CMakeFiles/ost_conop.dir/diag.cc.o CMakeFiles/ost_conop.dir/rule_based.cc.o CMakeFiles/ost_conop.dir/model_check.cc.o CMakeFiles/ost_conop.dir/compound.cc.o CMakeFiles/ost_conop.dir/compound_lib.cc.o CMakeFiles/ost_conop.dir/ring_finder.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4972,7 +5012,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_progress.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_point.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -4992,7 +5032,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_data.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_image_handle.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5012,13 +5052,18 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_chain.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_atom.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_conop.so.2.2 ../../../stage/lib/libost_conop.so +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 30%] Built target ost_conop +[ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom_view.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_atom_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_atom_view.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5032,7 +5077,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_peak.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_mask.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5052,7 +5097,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_phase.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_size.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5072,7 +5117,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_point.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_image_list.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5092,7 +5137,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_atom.cc:19: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_data_algorithm.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5112,13 +5157,10 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_extent.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_progress.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5132,30 +5174,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_chain_view.cc:19: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_raster_image.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_image_handle.cc:25: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -5172,7 +5197,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_data_algorithm.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_phase.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5192,7 +5217,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_raster_image.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_extent.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5212,42 +5237,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_atom_view.cc:19: + from /build/openstructure-2.2.0/modules/img/base/pymod/wrap_img.cc:27: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_size.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_size.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_size.cc -[ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_mask.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_mask.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_mask.cc -[ 30%] Linking CXX shared library ../../../stage/lib/libost_conop.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_conop.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_conop.so.2.2 -o ../../../stage/lib/libost_conop.so.2.2.0 CMakeFiles/ost_conop.dir/processor.cc.o CMakeFiles/ost_conop.dir/amino_acids.cc.o CMakeFiles/ost_conop.dir/conop.cc.o CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o CMakeFiles/ost_conop.dir/compound_lib_base.cc.o CMakeFiles/ost_conop.dir/heuristic.cc.o CMakeFiles/ost_conop.dir/diag.cc.o CMakeFiles/ost_conop.dir/rule_based.cc.o CMakeFiles/ost_conop.dir/model_check.cc.o CMakeFiles/ost_conop.dir/compound.cc.o CMakeFiles/ost_conop.dir/compound_lib.cc.o CMakeFiles/ost_conop.dir/ring_finder.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so -[ 32%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_list.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_image_list.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_image_list.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_conop.so.2.2 ../../../stage/lib/libost_conop.so -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 32%] Built target ost_conop -[ 32%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_group.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_coord_group.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_coord_group.cc -[ 32%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_map.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/export_map.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/export_map.cc -[ 32%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/wrap_img.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img.dir/wrap_img.cc.o -c /build/openstructure-2.2.0/modules/img/base/pymod/wrap_img.cc -make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/depend.internal". -Scanning dependencies of target ost_mol_alg -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/svd_superpose.cc +[ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bond.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_bond.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_bond.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5261,7 +5259,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_size.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_map.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5281,23 +5279,33 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_mask.cc:25: + from /build/openstructure-2.2.0/modules/img/base/pymod/export_peak.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_chain.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_chain.cc +make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/depend.internal". +[ 32%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain_view.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_chain_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_chain_view.cc +Scanning dependencies of target ost_mol_alg +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/svd_superpose.cc make -f modules/gfx/src/CMakeFiles/ost_gfx.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx.dir/DependInfo.cmake --color= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx.dir/depend.internal". -In file included from /usr/include/boost/bind.hpp:30, - from /build/openstructure-2.2.0/modules/mol/alg/src/svd_superpose.cc:22: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ Scanning dependencies of target ost_gfx make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/gfx/src/CMakeFiles/ost_gfx.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx.dir/build @@ -5317,35 +5325,28 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_map.cc:20: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_atom_view.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/export_image_list.cc:25: +In file included from /usr/include/boost/bind.hpp:30, + from /build/openstructure-2.2.0/modules/mol/alg/src/svd_superpose.cc:22: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ [ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/clash_score.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/clash_score.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/clash_score.cc +[ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/sec_structure_segments.cc +[ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/local_dist_diff_test.cc +[ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/distance_test_common.cc +[ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/distance_rmsd_test.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5359,13 +5360,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_coord_group.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_bond.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/exporter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/exporter.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/exporter.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5379,39 +5382,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/base/pymod/wrap_img.cc:27: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_chain.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 32%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_coord_frame.cc -[ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/exporter.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/exporter.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/exporter.cc -[ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/collada_exporter.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/collada_exporter.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/collada_exporter.cc -[ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color.cc -[ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/primitives.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/primitives.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/primitives.cc -[ 32%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_editors.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_editors.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_editors.cc -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/entity.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/entity.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/entity.cc -[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/sec_structure_segments.cc -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/symmetry_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/symmetry_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/symmetry_node.cc -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gfx_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gfx_node.cc -[ 33%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_entity.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity.cc -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_object.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gfx_object.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gfx_object.cc -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_prim.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gfx_prim.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gfx_prim.cc +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/superpose_frames.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5425,28 +5404,37 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_coord_frame.cc:24: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_chain_view.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 33%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_view.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_entity_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity_view.cc -In file included from /usr/include/boost/bind.hpp:30, - from /build/openstructure-2.2.0/modules/gfx/src/gfx_node.cc:19: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gfx_test_object.cc -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/input.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/input.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/input.cc -[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/local_dist_diff_test.cc -[ 33%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_property_id.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_property_id.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_property_id.cc +[ 33%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_group.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_coord_group.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_coord_group.cc +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/filter_clashes.cc +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/construct_cbeta.cc +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/trajectory_analysis.cc +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/structure_analysis.cc +[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/collada_exporter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/collada_exporter.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/collada_exporter.cc +[ 33%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/img/_ost_img.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_img.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/img/_ost_img.so CMakeFiles/_ost_img.dir/export_data.cc.o CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o CMakeFiles/_ost_img.dir/export_extent.cc.o CMakeFiles/_ost_img.dir/export_image_handle.cc.o CMakeFiles/_ost_img.dir/export_peak.cc.o CMakeFiles/_ost_img.dir/export_phase.cc.o CMakeFiles/_ost_img.dir/export_point.cc.o CMakeFiles/_ost_img.dir/export_progress.cc.o CMakeFiles/_ost_img.dir/export_raster_image.cc.o CMakeFiles/_ost_img.dir/export_size.cc.o CMakeFiles/_ost_img.dir/export_mask.cc.o CMakeFiles/_ost_img.dir/export_image_list.cc.o CMakeFiles/_ost_img.dir/export_map.cc.o CMakeFiles/_ost_img.dir/wrap_img.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/consistency_checks.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/img/base/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/img/./__init__.pyc\",\"__init__.py\",doraise=True)" +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 33%] Built target _ost_img +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/pdbize.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/pdbize.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/pdbize.cc +[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5460,23 +5448,29 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_editors.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_coord_group.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/prim_list.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/prim_list.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/prim_list.cc -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/scene.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/scene.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/scene.cc -[ 33%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/img/_ost_img.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_img.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/img/_ost_img.so CMakeFiles/_ost_img.dir/export_data.cc.o CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o CMakeFiles/_ost_img.dir/export_extent.cc.o CMakeFiles/_ost_img.dir/export_image_handle.cc.o CMakeFiles/_ost_img.dir/export_peak.cc.o CMakeFiles/_ost_img.dir/export_phase.cc.o CMakeFiles/_ost_img.dir/export_point.cc.o CMakeFiles/_ost_img.dir/export_progress.cc.o CMakeFiles/_ost_img.dir/export_raster_image.cc.o CMakeFiles/_ost_img.dir/export_size.cc.o CMakeFiles/_ost_img.dir/export_mask.cc.o CMakeFiles/_ost_img.dir/export_image_list.cc.o CMakeFiles/_ost_img.dir/export_map.cc.o CMakeFiles/_ost_img.dir/wrap_img.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/img/base/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/img/./__init__.pyc\",\"__init__.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 33%] Built target _ost_img +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/adjacency_bitmap.cc +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/contact_overlap.cc +[ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/domain_find.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/domain_find.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/domain_find.cc +[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/primitives.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/primitives.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/primitives.cc +[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/entity.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/entity.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/entity.cc +[ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/similarity_matrix.cc +[ 34%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_coord_frame.cc +[ 35%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/accessibility.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/accessibility.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/accessibility.cc make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/DependInfo.cmake --color= @@ -5486,15 +5480,22 @@ make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 33%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o +[ 35%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o -c /build/openstructure-2.2.0/modules/img/alg/pymod/wrap_alg.cc -[ 33%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_query.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_query.cc -In file included from /usr/include/boost/bind.hpp:30, - from /build/openstructure-2.2.0/modules/gfx/src/scene.cc:33: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ +[ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/symmetry_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/symmetry_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/symmetry_node.cc +[ 35%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/sec_struct.cc +[ 35%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/nonstandard.cc +[ 35%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/molck.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/molck.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/molck.cc +[ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_editors.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_editors.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_editors.cc +[ 35%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/find_membrane.cc +[ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gfx_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gfx_node.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5508,13 +5509,17 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_coord_frame.cc:24: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_entity.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity.cc +[ 35%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/entity_to_density.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5528,19 +5533,28 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity_view.cc:19: + from /build/openstructure-2.2.0/modules/img/alg/pymod/wrap_alg.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/selection.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/selection.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/selection.cc -[ 33%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_residue.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_residue.cc -[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/surface.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/surface.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/surface.cc +In file included from /usr/include/boost/bind.hpp:30, + from /build/openstructure-2.2.0/modules/gfx/src/gfx_node.cc:19: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +[ 35%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_filter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img_alg.dir/export_filter.cc.o -c /build/openstructure-2.2.0/modules/img/alg/pymod/export_filter.cc +[ 35%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o -c /build/openstructure-2.2.0/modules/img/alg/pymod/export_normalizer.cc +[ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_view.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_entity_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity_view.cc +[ 35%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o -c /build/openstructure-2.2.0/modules/img/alg/pymod/export_transcendentals.cc +[ 35%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_polar.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -c /build/openstructure-2.2.0/modules/img/alg/pymod/export_polar.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5554,19 +5568,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_property_id.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_editors.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gradient.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gradient.cc -[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient_manager.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gradient_manager.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gradient_manager.cc -[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/vertex_array.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/vertex_array.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5580,15 +5588,21 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/alg/pymod/wrap_alg.cc:25: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/vertex_array_helper.cc +[ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_object.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gfx_object.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gfx_object.cc +[ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_property_id.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_property_id.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_property_id.cc +[ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_query.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_query.cc +[ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_prim.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gfx_prim.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gfx_prim.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5602,17 +5616,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_query.cc:19: + from /build/openstructure-2.2.0/modules/img/alg/pymod/export_normalizer.cc:27: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 34%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue_view.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_residue_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_residue_view.cc -[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/material.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/material.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/material.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5626,41 +5636,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_residue.cc:19: + from /build/openstructure-2.2.0/modules/img/alg/pymod/export_filter.cc:27: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/povray.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/povray.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/povray.cc -[ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/distance_test_common.cc -[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gost_exporter.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gost_exporter.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gost_exporter.cc -/build/openstructure-2.2.0/modules/gfx/src/vertex_array.cc:1311:8: warning: 'geom::Vec3 ost::gfx::{anonymous}::make_aaline_edge(const geom::Vec2&, const geom::Vec2&, float)' defined but not used [-Wunused-function] - 1311 | Vec3 make_aaline_edge(const Vec2& c1, const Vec2& c0, float s) - | ^~~~~~~~~~~~~~~~ -/build/openstructure-2.2.0/modules/gfx/src/vertex_array.cc:1239:8: warning: 'void ost::gfx::{anonymous}::render_aalines(ost::gfx::{anonymous}::AALineList&, float, float)' defined but not used [-Wunused-function] - 1239 | void render_aalines(AALineList& line_list, float w, float r) - | ^~~~~~~~~~~~~~ -[ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/texture.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/texture.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/texture.cc -[ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_surface.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_surface.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_surface.cc -[ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/color_op.cc -[ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_element_color_op.cc -[ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_bounding_box.cc -[ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_chain_color_op.cc -[ 37%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/distance_rmsd_test.cc -[ 38%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/superpose_frames.cc +[ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_residue.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_residue.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5674,19 +5658,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_residue_view.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity_view.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/uniform_color_op.cc -[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_color_op.cc -[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/entity_view_color_op.cc +[ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue_view.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_residue_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_residue_view.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5700,15 +5680,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_surface.cc:19: + from /build/openstructure-2.2.0/modules/img/alg/pymod/export_transcendentals.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/basic_gradient_color_op.cc /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gfx_test_object.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5722,35 +5702,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_bounding_box.cc:19: + from /build/openstructure-2.2.0/modules/img/alg/pymod/export_polar.cc:24: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_level_color_op.cc -[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/entity_renderer.cc -[ 38%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_query_view_wrapper.cc -[ 38%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/filter_clashes.cc -[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/entity_detail.cc -[ 38%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_torsion.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_torsion.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_torsion.cc -[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/cartoon_renderer.cc -[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/custom_renderer.cc -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/cpk_renderer.cc -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/debug_renderer.cc -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/simple_renderer.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5764,13 +5722,17 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_query_view_wrapper.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_query.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 37%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_surface.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_surface.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_surface.cc +[ 37%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_bounding_box.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5784,37 +5746,31 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_torsion.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_property_id.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 39%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/construct_cbeta.cc -[ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_visitor.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_visitor.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_visitor.cc -[ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/wrap_mol.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/wrap_mol.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/wrap_mol.cc -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/sline_renderer.cc -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/line_trace_renderer.cc -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/backbone_trace.cc -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/connect_renderer_base.cc -[ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity_property_mapper.cc -[ 39%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/trajectory_analysis.cc -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer_base.cc -[ 39%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_filter.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img_alg.dir/export_filter.cc.o -c /build/openstructure-2.2.0/modules/img/alg/pymod/export_filter.cc -[ 39%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/structure_analysis.cc +[ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/input.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/input.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/input.cc +[ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/prim_list.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/prim_list.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/prim_list.cc +[ 37%] Linking CXX shared library ../../../../stage/lib/libost_mol_alg.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/atom_scattering_properties.txt /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/atom_scattering_properties.txt +[ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/scene.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/scene.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/scene.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/stereo_chemical_props.txt /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/stereo_chemical_props.txt +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol_alg.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_mol_alg.so.2.2 -o ../../../../stage/lib/libost_mol_alg.so.2.2.0 CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o CMakeFiles/ost_mol_alg.dir/clash_score.cc.o CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o CMakeFiles/ost_mol_alg.dir/pdbize.cc.o CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o CMakeFiles/ost_mol_alg.dir/domain_find.cc.o CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o CMakeFiles/ost_mol_alg.dir/accessibility.cc.o CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o CMakeFiles/ost_mol_alg.dir/molck.cc.o CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../../stage/lib/libost_conop.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_db.so.2.2.0 ../../../../stage/lib/libost_seq.so.2.2.0 ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libsqlite3.so +[ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/selection.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/selection.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/selection.cc +In file included from /usr/include/boost/bind.hpp:30, + from /build/openstructure-2.2.0/modules/gfx/src/scene.cc:33: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5828,13 +5784,52 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_visitor.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_residue_view.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/surface.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/surface.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/surface.cc +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gradient.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gradient.cc +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient_manager.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gradient_manager.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gradient_manager.cc +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/vertex_array.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/vertex_array.cc +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/vertex_array_helper.cc +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/material.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/material.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/material.cc +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/povray.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/povray.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/povray.cc +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gost_exporter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/gost_exporter.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/gost_exporter.cc +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/texture.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/texture.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/texture.cc +[ 38%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_query_view_wrapper.cc +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/color_op.cc +/build/openstructure-2.2.0/modules/gfx/src/vertex_array.cc:1311:8: warning: 'geom::Vec3 ost::gfx::{anonymous}::make_aaline_edge(const geom::Vec2&, const geom::Vec2&, float)' defined but not used [-Wunused-function] + 1311 | Vec3 make_aaline_edge(const Vec2& c1, const Vec2& c0, float s) + | ^~~~~~~~~~~~~~~~ +/build/openstructure-2.2.0/modules/gfx/src/vertex_array.cc:1239:8: warning: 'void ost::gfx::{anonymous}::render_aalines(ost::gfx::{anonymous}::AALineList&, float, float)' defined but not used [-Wunused-function] + 1239 | void render_aalines(AALineList& line_list, float w, float r) + | ^~~~~~~~~~~~~~ +[ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_element_color_op.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../../stage/lib/libost_mol_alg.so.2.2 ../../../../stage/lib/libost_mol_alg.so +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 38%] Built target ost_mol_alg +[ 38%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_torsion.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_torsion.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_torsion.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_chain_color_op.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/uniform_color_op.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5848,31 +5843,31 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/wrap_mol.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_query_view_wrapper.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/mapped_property.cc -[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/tabulated_trig.cc -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer.cc -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/fast_spheres.cc -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/render_options.cc -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/line_render_options.cc -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/custom_render_options.cc -[ 41%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/consistency_checks.cc -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/cpk_render_options.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_color_op.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/entity_view_color_op.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/basic_gradient_color_op.cc +[ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_visitor.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_visitor.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_visitor.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_level_color_op.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/entity_renderer.cc +[ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/wrap_mol.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/wrap_mol.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/wrap_mol.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/entity_detail.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/cartoon_renderer.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5886,19 +5881,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity_property_mapper.cc:1: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_torsion.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/simple_render_options.cc -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/sline_render_options.cc -[ 41%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/pdbize.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/pdbize.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/pdbize.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5912,62 +5901,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/alg/pymod/export_filter.cc:27: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_residue.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/line_trace_render_options.cc -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/cartoon_render_options.cc -[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/trace_render_options.cc -[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/map_handle_color_op.cc -[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/map_iso.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/map_iso.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/map_iso.cc -[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/map_slab.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/map_slab.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/map_slab.cc -[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen.cc -[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen_s.cc -[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen_o.cc -[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/map_octree.cc -[ 42%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/adjacency_bitmap.cc -[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/octree_isocont.cc -[ 42%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o -c /build/openstructure-2.2.0/modules/img/alg/pymod/export_normalizer.cc -[ 42%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o -c /build/openstructure-2.2.0/modules/img/alg/pymod/export_transcendentals.cc -[ 42%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -c /build/openstructure-2.2.0/modules/img/alg/pymod/export_polar.cc -[ 42%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/contact_overlap.cc -[ 42%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/domain_find.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/domain_find.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/domain_find.cc -[ 42%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/similarity_matrix.cc -[ 43%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/accessibility.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/accessibility.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/accessibility.cc -[ 43%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/sec_struct.cc -[ 43%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/mol/_ost_mol.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_mol.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/mol/_ost_mol.so CMakeFiles/_ost_mol.dir/export_atom.cc.o CMakeFiles/_ost_mol.dir/export_atom_view.cc.o CMakeFiles/_ost_mol.dir/export_bond.cc.o CMakeFiles/_ost_mol.dir/export_chain.cc.o CMakeFiles/_ost_mol.dir/export_chain_view.cc.o CMakeFiles/_ost_mol.dir/export_coord_group.cc.o CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o CMakeFiles/_ost_mol.dir/export_editors.cc.o CMakeFiles/_ost_mol.dir/export_entity.cc.o CMakeFiles/_ost_mol.dir/export_entity_view.cc.o CMakeFiles/_ost_mol.dir/export_property_id.cc.o CMakeFiles/_ost_mol.dir/export_query.cc.o CMakeFiles/_ost_mol.dir/export_residue.cc.o CMakeFiles/_ost_mol.dir/export_residue_view.cc.o CMakeFiles/_ost_mol.dir/export_surface.cc.o CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o CMakeFiles/_ost_mol.dir/export_torsion.cc.o CMakeFiles/_ost_mol.dir/export_visitor.cc.o CMakeFiles/_ost_mol.dir/wrap_mol.cc.o CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_mol.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 -[ 43%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/nonstandard.cc -[ 43%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/molck.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/molck.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/molck.cc -[ 43%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/find_membrane.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5981,15 +5921,19 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/alg/pymod/export_normalizer.cc:27: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_visitor.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 43%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/entity_to_density.cc +[ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/custom_renderer.cc +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/cpk_renderer.cc +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/debug_renderer.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6003,29 +5947,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/alg/pymod/export_transcendentals.cc:25: + from /build/openstructure-2.2.0/modules/mol/base/pymod/wrap_mol.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/mol/base/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/./__init__.pyc\",\"__init__.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 43%] Built target _ost_mol -make -f modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build.make modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/depend.internal". -Scanning dependencies of target _ost_seq -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build.make modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 43%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_sequence.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_seq.dir/export_sequence.cc.o -c /build/openstructure-2.2.0/modules/seq/base/pymod/export_sequence.cc -[ 43%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o -c /build/openstructure-2.2.0/modules/seq/base/pymod/export_profile_handle.cc +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/simple_renderer.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6039,40 +5969,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/img/alg/pymod/export_polar.cc:24: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_surface.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 43%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -c /build/openstructure-2.2.0/modules/seq/base/pymod/wrap_seq.cc -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object/class.hpp:9, - from /usr/include/boost/python/class.hpp:13, - from /usr/include/boost/python/suite/indexing/indexing_suite.hpp:9, - from /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:9, - from /build/openstructure-2.2.0/modules/seq/base/pymod/export_profile_handle.cc:24: -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -[ 43%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/img/alg/_ost_img_alg.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_img_alg.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/img/alg/_ost_img_alg.so CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o CMakeFiles/_ost_img_alg.dir/export_filter.cc.o CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_img_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6086,16 +5989,46 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/seq/base/pymod/export_sequence.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_bounding_box.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/img/alg/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/img/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/sline_renderer.cc +[ 41%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -c /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity_property_mapper.cc +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/line_trace_renderer.cc +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/backbone_trace.cc +make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/depend +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/connect_renderer_base.cc +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io.dir/depend.internal". +Scanning dependencies of target ost_io make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 43%] Built target _ost_img_alg +make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 41%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/io_manager.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/io_manager.cc.o -c /build/openstructure-2.2.0/modules/io/src/io_manager.cc +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer_base.cc +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/mapped_property.cc +[ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/tabulated_trig.cc +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer.cc +[ 42%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/convert.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/convert.cc.o -c /build/openstructure-2.2.0/modules/io/src/convert.cc +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/fast_spheres.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6109,89 +6042,98 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/seq/base/pymod/wrap_seq.cc:19: + from /build/openstructure-2.2.0/modules/mol/base/pymod/export_entity_property_mapper.cc:1: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 43%] Linking CXX shared library ../../../stage/lib/libost_gfx.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/test_texture.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/textures/test_texture.png -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/glyph_texture.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/textures/glyph_texture.png -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_gfx.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall 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CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o CMakeFiles/ost_gfx.dir/map_iso.cc.o CMakeFiles/ost_gfx.dir/map_slab.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_img_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libOpenGL.so /usr/lib/x86_64-linux-gnu/libGLX.so /usr/lib/x86_64-linux-gnu/libGLU.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so ../../../stage/lib/libost_db.so.2.2.0 ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_img.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_gfx.so.2.2.0 ../../../stage/lib/libost_gfx.so.2.2 ../../../stage/lib/libost_gfx.so -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 43%] Built target ost_gfx -[ 43%] Linking CXX shared library ../../../../stage/lib/libost_mol_alg.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/atom_scattering_properties.txt /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/atom_scattering_properties.txt -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/stereo_chemical_props.txt /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/stereo_chemical_props.txt -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol_alg.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_mol_alg.so.2.2 -o ../../../../stage/lib/libost_mol_alg.so.2.2.0 CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o CMakeFiles/ost_mol_alg.dir/clash_score.cc.o CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o CMakeFiles/ost_mol_alg.dir/pdbize.cc.o CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o CMakeFiles/ost_mol_alg.dir/domain_find.cc.o CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o CMakeFiles/ost_mol_alg.dir/accessibility.cc.o CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o CMakeFiles/ost_mol_alg.dir/molck.cc.o CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../../stage/lib/libost_conop.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_db.so.2.2.0 ../../../../stage/lib/libost_seq.so.2.2.0 ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libsqlite3.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../../stage/lib/libost_mol_alg.so.2.2 ../../../../stage/lib/libost_mol_alg.so -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 43%] Built target ost_mol_alg -make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io.dir/depend.internal". -Scanning dependencies of target ost_io -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/convert.cc.o -[ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/convert.cc.o -c /build/openstructure-2.2.0/modules/io/src/convert.cc -[ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/io_utils.cc.o +/build/openstructure-2.2.0/modules/io/src/convert.cc: In static member function 'static float ost::io::{anonymous}::ConvertHelper<1, 2, float>::Convert(const float&)': +/build/openstructure-2.2.0/modules/io/src/convert.cc:346:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] + 346 | reinterpret_cast(&result)[0]=reinterpret_cast(&tmp)[1]; + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/openstructure-2.2.0/modules/io/src/convert.cc:347:52: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] + 347 | reinterpret_cast(&result)[1]=reinterpret_cast(&tmp)[0]; + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/openstructure-2.2.0/modules/io/src/convert.cc: In static member function 'static void ost::io::{anonymous}::ConvertHelper<1, 2, float>::ConvertIP(float*)': +/build/openstructure-2.2.0/modules/io/src/convert.cc:355:50: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] + 355 | reinterpret_cast(value)[1]=reinterpret_cast(&tmp)[0]; + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/openstructure-2.2.0/modules/io/src/convert.cc: In static member function 'static float ost::io::{anonymous}::ConvertHelper<2, 1, float>::Convert(const float&)': +/build/openstructure-2.2.0/modules/io/src/convert.cc:367:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] + 367 | reinterpret_cast(&tmp)[0]=reinterpret_cast(&value)[1]; + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/openstructure-2.2.0/modules/io/src/convert.cc: In static member function 'static void ost::io::{anonymous}::ConvertHelper<2, 1, float>::ConvertIP(float*)': +/build/openstructure-2.2.0/modules/io/src/convert.cc:375:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] + 375 | reinterpret_cast(&tmp)[0]=reinterpret_cast(value)[1]; + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/render_options.cc +[ 42%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/io_utils.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/io_utils.cc.o -c /build/openstructure-2.2.0/modules/io/src/io_utils.cc +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/line_render_options.cc +[ 42%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/entity_io_crd_handler.cc -[ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/io_manager.cc.o +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/custom_render_options.cc +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/cpk_render_options.cc +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/simple_render_options.cc +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/sline_render_options.cc +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/line_trace_render_options.cc +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/cartoon_render_options.cc +[ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/render_options/trace_render_options.cc +[ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/color_ops/map_handle_color_op.cc +[ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/map_iso.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/map_iso.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/map_iso.cc +[ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/map_slab.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/map_slab.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/map_slab.cc +[ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen.cc +[ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o [ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/io_manager.cc.o -c /build/openstructure-2.2.0/modules/io/src/io_manager.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pqr_handler.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen_s.cc +[ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen_o.cc +[ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/map_octree.cc +[ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/impl/octree_isocont.cc [ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/entity_io_mae_handler.cc -[ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o [ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/pdb_reader.cc -[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o +[ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pdb_handler.cc +[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/pdb_writer.cc [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o -[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/entity_io_sdf_handler.cc +[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/entity_io_mmcif_handler.cc [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o -[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/sdf_reader.cc +[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/sdf_writer.cc [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/save_entity.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/save_entity.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/save_entity.cc [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/load_entity.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/load_entity.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/load_entity.cc -/build/openstructure-2.2.0/modules/io/src/convert.cc: In static member function 'static float ost::io::{anonymous}::ConvertHelper<1, 2, float>::Convert(const float&)': -/build/openstructure-2.2.0/modules/io/src/convert.cc:346:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] - 346 | reinterpret_cast(&result)[0]=reinterpret_cast(&tmp)[1]; - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/openstructure-2.2.0/modules/io/src/convert.cc:347:52: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] - 347 | reinterpret_cast(&result)[1]=reinterpret_cast(&tmp)[0]; - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/openstructure-2.2.0/modules/io/src/convert.cc: In static member function 'static void ost::io::{anonymous}::ConvertHelper<1, 2, float>::ConvertIP(float*)': -/build/openstructure-2.2.0/modules/io/src/convert.cc:355:50: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] - 355 | reinterpret_cast(value)[1]=reinterpret_cast(&tmp)[0]; - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/openstructure-2.2.0/modules/io/src/convert.cc: In static member function 'static float ost::io::{anonymous}::ConvertHelper<2, 1, float>::Convert(const float&)': -/build/openstructure-2.2.0/modules/io/src/convert.cc:367:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] - 367 | reinterpret_cast(&tmp)[0]=reinterpret_cast(&value)[1]; - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/openstructure-2.2.0/modules/io/src/convert.cc: In static member function 'static void ost::io::{anonymous}::ConvertHelper<2, 1, float>::ConvertIP(float*)': -/build/openstructure-2.2.0/modules/io/src/convert.cc:375:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] - 375 | reinterpret_cast(&tmp)[0]=reinterpret_cast(value)[1]; - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/surface_io_msms_handler.cc +[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/load_surface.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/load_surface.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/load_surface.cc +[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/chemdict_parser.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6207,14 +6149,16 @@ /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/load_surface.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/load_surface.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/load_surface.cc -[ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/chemdict_parser.cc +[ 44%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/img/alg/_ost_img_alg.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_img_alg.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/img/alg/_ost_img_alg.so CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o CMakeFiles/_ost_img_alg.dir/export_filter.cc.o CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_img_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/io_profile.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/io_profile.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/io_profile.cc [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/dcd_io.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/dcd_io.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/dcd_io.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/img/alg/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/img/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 46%] Built target _ost_img_alg [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/star_parser.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/star_parser.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/star_parser.cc [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_reader.cc.o @@ -6227,10 +6171,18 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/stereochemical_params_reader.cc [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/seq/clustal_io_handler.cc +[ 46%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/mol/_ost_mol.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_mol.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/mol/_ost_mol.so CMakeFiles/_ost_mol.dir/export_atom.cc.o CMakeFiles/_ost_mol.dir/export_atom_view.cc.o CMakeFiles/_ost_mol.dir/export_bond.cc.o CMakeFiles/_ost_mol.dir/export_chain.cc.o CMakeFiles/_ost_mol.dir/export_chain_view.cc.o CMakeFiles/_ost_mol.dir/export_coord_group.cc.o CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o CMakeFiles/_ost_mol.dir/export_editors.cc.o CMakeFiles/_ost_mol.dir/export_entity.cc.o CMakeFiles/_ost_mol.dir/export_entity_view.cc.o CMakeFiles/_ost_mol.dir/export_property_id.cc.o CMakeFiles/_ost_mol.dir/export_query.cc.o CMakeFiles/_ost_mol.dir/export_residue.cc.o CMakeFiles/_ost_mol.dir/export_residue_view.cc.o CMakeFiles/_ost_mol.dir/export_surface.cc.o CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o CMakeFiles/_ost_mol.dir/export_torsion.cc.o CMakeFiles/_ost_mol.dir/export_visitor.cc.o CMakeFiles/_ost_mol.dir/wrap_mol.cc.o CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_mol.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/load.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/seq/load.cc.o -c /build/openstructure-2.2.0/modules/io/src/seq/load.cc [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/save.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/seq/save.cc.o -c /build/openstructure-2.2.0/modules/io/src/seq/save.cc +[ 46%] Linking CXX shared library ../../../stage/lib/libost_gfx.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/test_texture.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/textures/test_texture.png +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/glyph_texture.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/textures/glyph_texture.png +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_gfx.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -Wl,-soname,libost_gfx.so.2.2 -o ../../../stage/lib/libost_gfx.so.2.2.0 CMakeFiles/ost_gfx.dir/bitmap_io.cc.o CMakeFiles/ost_gfx.dir/exporter.cc.o CMakeFiles/ost_gfx.dir/collada_exporter.cc.o CMakeFiles/ost_gfx.dir/color.cc.o CMakeFiles/ost_gfx.dir/primitives.cc.o CMakeFiles/ost_gfx.dir/entity.cc.o CMakeFiles/ost_gfx.dir/symmetry_node.cc.o CMakeFiles/ost_gfx.dir/gfx_node.cc.o CMakeFiles/ost_gfx.dir/gfx_object.cc.o CMakeFiles/ost_gfx.dir/gfx_prim.cc.o CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o CMakeFiles/ost_gfx.dir/input.cc.o CMakeFiles/ost_gfx.dir/prim_list.cc.o CMakeFiles/ost_gfx.dir/scene.cc.o CMakeFiles/ost_gfx.dir/selection.cc.o CMakeFiles/ost_gfx.dir/surface.cc.o CMakeFiles/ost_gfx.dir/gradient.cc.o CMakeFiles/ost_gfx.dir/gradient_manager.cc.o CMakeFiles/ost_gfx.dir/vertex_array.cc.o CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o CMakeFiles/ost_gfx.dir/material.cc.o CMakeFiles/ost_gfx.dir/povray.cc.o CMakeFiles/ost_gfx.dir/gost_exporter.cc.o CMakeFiles/ost_gfx.dir/texture.cc.o CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o CMakeFiles/ost_gfx.dir/map_iso.cc.o CMakeFiles/ost_gfx.dir/map_slab.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_img_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libOpenGL.so /usr/lib/x86_64-linux-gnu/libGLX.so /usr/lib/x86_64-linux-gnu/libGLU.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so ../../../stage/lib/libost_db.so.2.2.0 ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_img.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/seq/fasta_io_handler.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o @@ -6245,25 +6197,42 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/load_map.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/load_map.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_dx_handler.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_gfx.so.2.2.0 ../../../stage/lib/libost_gfx.so.2.2 ../../../stage/lib/libost_gfx.so +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_spi_handler.cc +[ 47%] Built target ost_gfx [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_situs_handler.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_mrc_handler.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/mol/base/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/mol/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_dm3_handler.cc +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 47%] Built target _ost_mol +make -f modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build.make modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/depend.internal". +Scanning dependencies of target _ost_seq +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build.make modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 47%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_sequence.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_seq.dir/export_sequence.cc.o -c /build/openstructure-2.2.0/modules/seq/base/pymod/export_sequence.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_tiff_handler.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_dat_handler.cc +[ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_ipl_handler.cc In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.2.0/modules/io/src/img/map_io_tiff_handler.cc:32: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_ipl_handler.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_jpk_handler.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o @@ -6276,65 +6245,8 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/image_format.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/image_format.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/tiff_util.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_io.dir/img/tiff_util.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/tiff_util.cc -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_impl.hh:29, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_def.hh:32, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state.hh:31, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/alg_transform.hh:24, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/transform.hh:24, - from /build/openstructure-2.2.0/modules/io/src/img/map_io_jpk_handler.cc:24: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -[ 48%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/seq/_ost_seq.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_seq.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/seq/_ost_seq.so CMakeFiles/_ost_seq.dir/export_sequence.cc.o CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/seq/base/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/./__init__.pyc\",\"__init__.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 48%] Built target _ost_seq -make -f modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build.make modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/depend -make -f modules/db/pymod/CMakeFiles/_ost_db.dir/build.make modules/db/pymod/CMakeFiles/_ost_db.dir/depend -make -f modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build.make modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/_ost_db.dir/DependInfo.cmake --color= -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/DependInfo.cmake --color= -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/_ost_db.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/_ost_db.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/_ost_db.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/depend.internal". -Scanning dependencies of target _ost_db -Scanning dependencies of target _ost_seq_alg -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/db/pymod/CMakeFiles/_ost_db.dir/build.make modules/db/pymod/CMakeFiles/_ost_db.dir/build -make -f modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build.make modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build -Scanning dependencies of target _ost_bindings -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build.make modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 48%] Building CXX object modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -[ 48%] Building CXX object modules/db/pymod/CMakeFiles/_ost_db.dir/wrap_db.cc.o -[ 48%] Building CXX object modules/db/pymod/CMakeFiles/_ost_db.dir/export_linear_db.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_db_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_db.dir/wrap_db.cc.o -c /build/openstructure-2.2.0/modules/db/pymod/wrap_db.cc -[ 48%] Building CXX object modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/pymod/wrap_seq_alg.cc -[ 48%] Building CXX object modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_bindings_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -c /build/openstructure-2.2.0/modules/bindings/pymod/wrap_bindings.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_db_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_db.dir/export_linear_db.cc.o -c /build/openstructure-2.2.0/modules/db/pymod/export_linear_db.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_bindings_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o -c /build/openstructure-2.2.0/modules/bindings/pymod/export_tmalign.cc +[ 48%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o -c /build/openstructure-2.2.0/modules/seq/base/pymod/export_profile_handle.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6348,7 +6260,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/db/pymod/export_linear_db.cc:21: + from /build/openstructure-2.2.0/modules/seq/base/pymod/export_sequence.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -6362,19 +6274,17 @@ from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/seq/alg/pymod/wrap_seq_alg.cc:19: + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_impl.hh:29, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_def.hh:32, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state.hh:31, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/alg_transform.hh:24, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/transform.hh:24, + from /build/openstructure-2.2.0/modules/io/src/img/map_io_jpk_handler.cc:24: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 48%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/wrap_seq.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -c /build/openstructure-2.2.0/modules/seq/base/pymod/wrap_seq.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6386,35 +6296,17 @@ from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/bindings/pymod/wrap_bindings.cc:20: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ + from /usr/include/boost/python/object/class.hpp:9, + from /usr/include/boost/python/class.hpp:13, + from /usr/include/boost/python/suite/indexing/indexing_suite.hpp:9, + from /usr/include/boost/python/suite/indexing/vector_indexing_suite.hpp:9, + from /build/openstructure-2.2.0/modules/seq/base/pymod/export_profile_handle.cc:24: /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/bindings/pymod/export_tmalign.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6428,7 +6320,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/db/pymod/wrap_db.cc:21: + from /build/openstructure-2.2.0/modules/seq/base/pymod/wrap_seq.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -6452,92 +6344,92 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests/CMakeFiles/test_mae_standalone.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/lddt.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/chemdict_tool.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/chemdict_tool.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/chemdict_tool.dir/depend.internal". make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/tools/molck /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck/CMakeFiles/molck.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/chemdict_tool.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/chemdict_tool.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/chemdict_tool.dir/depend.internal". Scanning dependencies of target chemdict_tool make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/conop/src/CMakeFiles/chemdict_tool.dir/build.make modules/conop/src/CMakeFiles/chemdict_tool.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/lddt.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/lddt.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/lddt.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests/CMakeFiles/test_mae_standalone.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests/CMakeFiles/test_mae_standalone.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests/CMakeFiles/test_mae_standalone.dir/depend.internal". -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck/CMakeFiles/molck.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck/CMakeFiles/molck.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck/CMakeFiles/molck.dir/depend.internal". Scanning dependencies of target test_mae_standalone make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/io/tests/CMakeFiles/test_mae_standalone.dir/build.make modules/io/tests/CMakeFiles/test_mae_standalone.dir/build -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck/CMakeFiles/molck.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck/CMakeFiles/molck.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck/CMakeFiles/molck.dir/depend.internal". +Scanning dependencies of target lddt make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Scanning dependencies of target molck -[ 48%] Building CXX object modules/conop/src/CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/lddt.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/lddt.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/lddt.dir/depend.internal". -make -f tools/molck/CMakeFiles/molck.dir/build.make tools/molck/CMakeFiles/molck.dir/build +make -f modules/mol/alg/src/CMakeFiles/lddt.dir/build.make modules/mol/alg/src/CMakeFiles/lddt.dir/build +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f tools/molck/CMakeFiles/molck.dir/build.make tools/molck/CMakeFiles/molck.dir/build +[ 48%] Building CXX object modules/conop/src/CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o -c /build/openstructure-2.2.0/modules/conop/src/chemdict_tool.cc -Scanning dependencies of target lddt -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/mol/alg/src/CMakeFiles/lddt.dir/build.make modules/mol/alg/src/CMakeFiles/lddt.dir/build -[ 48%] Building CXX object modules/io/tests/CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 48%] Building CXX object modules/io/tests/CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_mae_standalone.cc -[ 48%] Building CXX object tools/molck/CMakeFiles/molck.dir/main.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/molck.dir/main.cc.o -c /build/openstructure-2.2.0/tools/molck/main.cc +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 48%] Building CXX object modules/mol/alg/src/CMakeFiles/lddt.dir/lddt.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/lddt.dir/lddt.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/src/lddt.cc -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 48%] Building CXX object tools/molck/CMakeFiles/molck.dir/main.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/molck.dir/main.cc.o -c /build/openstructure-2.2.0/tools/molck/main.cc [ 50%] Generating data_viewer/moc_pointlist_overlay_base.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp_parameters [ 50%] Generating moc_file_browser.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_file_browser.cpp_parameters [ 50%] Generating moc_file_type_dialog.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_file_browser.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_file_type_dialog.cpp_parameters [ 50%] Generating moc_file_viewer.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_file_viewer.cpp_parameters [ 50%] Generating moc_gl_canvas.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gl_canvas.cpp_parameters +[ 50%] Generating moc_scene_menu.cpp [ 51%] Generating moc_gl_win.cpp -[ 51%] Generating moc_scene_menu.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_scene_menu.cpp_parameters +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_file_viewer.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gl_win.cpp_parameters +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_scene_menu.cpp_parameters [ 51%] Generating moc_gosty_app.cpp -[ 51%] Generating moc_main.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gosty_app.cpp_parameters +[ 51%] Generating moc_main.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_main.cpp_parameters [ 51%] Generating moc_main_area.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_main_area.cpp_parameters [ 51%] Generating moc_perspective.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_perspective.cpp_parameters -[ 51%] Generating moc_main_window.cpp [ 51%] Generating moc_dock_widget.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_dock_widget.cpp_parameters +[ 51%] Generating moc_main_window.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_main_window.cpp_parameters [ 51%] Generating moc_scene_selection.cpp +[ 52%] Generating moc_widget_geom_handler.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_scene_selection.cpp_parameters -[ 51%] Generating moc_widget.cpp +[ 52%] Generating moc_widget.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget.cpp_parameters -[ 52%] Generating moc_widget_geom_handler.cpp [ 52%] Generating moc_widget_pool.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget_geom_handler.cpp_parameters -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget_pool.cpp_parameters [ 52%] Generating messages/moc_message_widget.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget_pool.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages/moc_message_widget.cpp_parameters [ 52%] Generating messages/moc_message_box_widget.cpp -[ 52%] Generating sequence_viewer/moc_align_properties_painter.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages/moc_message_box_widget.cpp_parameters [ 52%] Generating messages/moc_log_reader.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages/moc_log_reader.cpp_parameters +[ 52%] Generating sequence_viewer/moc_align_properties_painter.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp_parameters [ 52%] Generating sequence_viewer/moc_background_painter.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_background_painter.cpp_parameters [ 52%] Generating sequence_viewer/moc_base_row.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_background_painter.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_base_row.cpp_parameters [ 52%] Generating sequence_viewer/moc_painter.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_painter.cpp_parameters [ 52%] Generating sequence_viewer/moc_conservation_painter.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp_parameters +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_painter.cpp_parameters [ 52%] Generating sequence_viewer/moc_secstr_row.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_secstr_row.cpp_parameters [ 53%] Generating sequence_viewer/moc_seq_secstr_painter.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp_parameters @@ -6548,8 +6440,8 @@ [ 53%] Generating sequence_viewer/moc_sequence_delegate.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp_parameters [ 53%] Generating sequence_viewer/moc_sequence_model.cpp -[ 53%] Generating sequence_viewer/moc_sequence_row.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_model.cpp_parameters +[ 53%] Generating sequence_viewer/moc_sequence_row.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_row.cpp_parameters [ 53%] Generating sequence_viewer/moc_sequence_search_bar.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp_parameters @@ -6568,34 +6460,34 @@ [ 55%] Generating sequence_viewer/moc_sequence_view_object.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp_parameters [ 55%] Generating python_shell/moc_main_thread_runner.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_main_thread_runner.cpp_parameters [ 55%] Generating python_shell/moc_completer_base.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_completer_base.cpp_parameters [ 55%] Generating python_shell/moc_gutter.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_main_thread_runner.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_gutter.cpp_parameters +[ 55%] Generating python_shell/moc_output_redirector.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_output_redirector.cpp_parameters [ 55%] Generating python_shell/moc_path_completer.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_path_completer.cpp_parameters -[ 55%] Generating python_shell/moc_output_redirector.cpp [ 55%] Generating python_shell/moc_python_completer.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_output_redirector.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_completer.cpp_parameters -[ 55%] Generating python_shell/moc_python_interpreter_worker.cpp [ 56%] Generating python_shell/moc_python_interpreter.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_interpreter.cpp_parameters +[ 56%] Generating python_shell/moc_python_interpreter_worker.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_interpreter_worker.cpp_parameters [ 56%] Generating python_shell/moc_python_namespace_tree_model.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_namespace_tree_model.cpp_parameters [ 56%] Generating python_shell/moc_python_shell.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_namespace_tree_model.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_shell.cpp_parameters [ 56%] Generating python_shell/moc_python_shell_widget.cpp -[ 56%] Generating python_shell/moc_text_logger.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_shell_widget.cpp_parameters +[ 56%] Generating python_shell/moc_text_logger.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_text_logger.cpp_parameters [ 56%] Generating python_shell/moc_state_machine.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_state_machine.cpp_parameters [ 56%] Generating python_shell/moc_state.cpp -[ 56%] Generating python_shell/moc_transition.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_state.cpp_parameters +[ 56%] Generating python_shell/moc_transition.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_transition.cpp_parameters [ 56%] Generating python_shell/moc_transition_guard.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_transition_guard.cpp_parameters @@ -6603,43 +6495,43 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_button_bar.cpp_parameters [ 57%] Generating panels/moc_drop_box.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_drop_box.cpp_parameters -[ 57%] Generating panels/moc_panel_manager.cpp [ 57%] Generating panels/moc_panel_bar.cpp +[ 57%] Generating panels/moc_panel_manager.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_bar.cpp_parameters -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_manager.cpp_parameters [ 57%] Generating panels/moc_bottom_bar.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_manager.cpp_parameters +[ 57%] Generating panels/moc_button_box.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_bottom_bar.cpp_parameters +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_button_box.cpp_parameters [ 57%] Generating panels/moc_event_button.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_event_button.cpp_parameters -[ 57%] Generating panels/moc_button_box.cpp [ 57%] Generating panels/moc_panel_widget_container.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_button_box.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_widget_container.cpp_parameters -[ 57%] Generating panels/moc_side_bar.cpp [ 57%] Generating panels/moc_panel_bar_widget_holder.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_bar_widget_holder.cpp_parameters +[ 57%] Generating panels/moc_side_bar.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_side_bar.cpp_parameters -[ 57%] Generating panels/moc_splitter_panel_bar.cpp +[ 58%] Generating panels/moc_splitter_panel_bar.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_splitter_panel_bar.cpp_parameters [ 58%] Generating panels/moc_tabbed_panel_bar.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_tabbed_panel_bar.cpp_parameters [ 58%] Generating scene_win/moc_context_menu.cpp -[ 58%] Generating scene_win/moc_gfx_scene_node.cpp -[ 58%] Generating scene_win/moc_current_selection_node.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_context_menu.cpp_parameters +[ 58%] Generating scene_win/moc_current_selection_node.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_current_selection_node.cpp_parameters +[ 58%] Generating scene_win/moc_custom_part_node.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_custom_part_node.cpp_parameters +[ 58%] Generating scene_win/moc_gfx_scene_node.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_gfx_scene_node.cpp_parameters [ 58%] Generating scene_win/moc_label_node.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_current_selection_node.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_label_node.cpp_parameters -[ 58%] Generating scene_win/moc_custom_part_node.cpp [ 58%] Generating scene_win/moc_entity_node.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_custom_part_node.cpp_parameters cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_entity_node.cpp_parameters [ 58%] Generating scene_win/moc_entity_part_node.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_entity_part_node.cpp_parameters [ 58%] Generating scene_win/moc_render_mode_node.cpp -[ 58%] Generating scene_win/moc_render_modes_node.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_render_mode_node.cpp_parameters +[ 58%] Generating scene_win/moc_render_modes_node.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_render_modes_node.cpp_parameters [ 60%] Generating scene_win/moc_root_node.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_root_node.cpp_parameters @@ -6651,34 +6543,31 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_scene_win_model.cpp_parameters [ 60%] Generating tools/moc_tool.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool.cpp_parameters -[ 60%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/bindings/_ost_bindings.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_bindings.dir/link.txt --verbose=1 [ 60%] Generating tools/moc_tool_option_group.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_option_group.cpp_parameters -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/bindings/_ost_bindings.so CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_bindings.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so [ 60%] Generating tools/moc_tool_options.cpp -[ 60%] Generating tools/moc_tool_bar.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_options.cpp_parameters +[ 60%] Generating tools/moc_tool_bar.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_bar.cpp_parameters [ 60%] Generating tools/moc_tool_option.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_option.cpp_parameters [ 60%] Generating tools/moc_tool_manager.cpp -[ 61%] Generating tools/moc_tool_options_widget.cpp -[ 61%] Generating tools/moc_measure_tool.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_manager.cpp_parameters +[ 61%] Generating tools/moc_tool_options_widget.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_options_widget.cpp_parameters +[ 61%] Generating tools/moc_measure_tool.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_measure_tool.cpp_parameters [ 61%] Generating tools/moc_tool_options_win.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_options_win.cpp_parameters [ 61%] Generating data_viewer/moc_argand.cpp -[ 61%] Generating data_viewer/moc_fft_panel.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_argand.cpp_parameters +[ 61%] Generating data_viewer/moc_fft_panel.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_fft_panel.cpp_parameters [ 61%] Generating data_viewer/moc_info_panel.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_info_panel.cpp_parameters [ 61%] Generating data_viewer/moc_data_viewer.cpp -[ 61%] Generating data_viewer/moc_overlay_manager_gui.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_data_viewer.cpp_parameters +[ 61%] Generating data_viewer/moc_overlay_manager_gui.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_overlay_manager_gui.cpp_parameters [ 61%] Generating data_viewer/moc_data_viewer_panel_base.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp_parameters @@ -6686,51 +6575,31 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_null_overlay.cpp_parameters [ 61%] Generating data_viewer/moc_overlay_base.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_overlay_base.cpp_parameters -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./__init__.pyc\",\"__init__.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/lga.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./lga.pyc\",\"lga.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/hbplus.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hbplus.pyc\",\"hbplus.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/msms.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./msms.pyc\",\"msms.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/tmtools.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./tmtools.pyc\",\"tmtools.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/dssp.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./dssp.pyc\",\"dssp.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/clustalw.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./clustalw.pyc\",\"clustalw.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/utils.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./utils.pyc\",\"utils.py\",doraise=True)" Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui.dir/depend.internal". -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/naccess.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./naccess.pyc\",\"naccess.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/hhblits.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits.pyc\",\"hhblits.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/hhblits2.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits2.pyc\",\"hhblits2.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/hhblits3.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits3.pyc\",\"hhblits3.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/blast.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./blast.pyc\",\"blast.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/cadscore.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./cadscore.pyc\",\"cadscore.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/kclust.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./kclust.pyc\",\"kclust.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/ialign.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./ialign.pyc\",\"ialign.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 61%] Built target _ost_bindings -[ 61%] Linking CXX executable ../../../stage/bin/test_mae_standalone -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mae_standalone.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o -o ../../../stage/bin/test_mae_standalone -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib ../../../stage/lib/libost_io.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_img_alg.so.2.2.0 ../../../stage/lib/libost_img.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so Scanning dependencies of target ost_gui make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/gui/src/CMakeFiles/ost_gui.dir/build.make modules/gui/src/CMakeFiles/ost_gui.dir/build -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 61%] Built target test_mae_standalone make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o -[ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_file_browser.cpp +[ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o [ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o +[ 61%] Linking CXX executable ../../../stage/bin/test_mae_standalone +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mae_standalone.dir/link.txt --verbose=1 cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_file_type_dialog.cpp -[ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_file_viewer.cpp [ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gl_canvas.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gl_win.cpp [ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_scene_menu.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gl_win.cpp [ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_scene_menu.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gosty_app.cpp +[ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o [ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gl_canvas.cpp +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o -o ../../../stage/bin/test_mae_standalone -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib ../../../stage/lib/libost_io.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_img_alg.so.2.2.0 ../../../stage/lib/libost_img.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_main.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_main.cpp [ 61%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_area.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_main_area.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_main_area.cpp @@ -6738,31 +6607,12 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_perspective.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_perspective.cpp [ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_dock_widget.cpp -[ 64%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/db/_ost_db.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_db.dir/link.txt --verbose=1 -[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_window.cpp.o +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 62%] Built target test_mae_standalone +[ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_window.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_main_window.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_main_window.cpp -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/db/_ost_db.so CMakeFiles/_ost_db.dir/export_linear_db.cc.o CMakeFiles/_ost_db.dir/wrap_db.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 -[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o +[ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_scene_selection.cpp -[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_widget.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget.cpp -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/db/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/db/./__init__.pyc\",\"__init__.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 64%] Built target _ost_db -make -f modules/conop/pymod/CMakeFiles/_ost_conop.dir/build.make modules/conop/pymod/CMakeFiles/_ost_conop.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/_ost_conop.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/_ost_conop.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/_ost_conop.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/_ost_conop.dir/depend.internal". -Scanning dependencies of target _ost_conop -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/conop/pymod/CMakeFiles/_ost_conop.dir/build.make modules/conop/pymod/CMakeFiles/_ost_conop.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 64%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/wrap_conop.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/wrap_conop.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/wrap_conop.cc -[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget_geom_handler.cpp In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_dock_widget.cpp:10: /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/../../../../modules/gui/src/dock_widget.hh:38:77: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 38 | DockWidget(const QString& title, QWidget* parent=0, Qt::WindowFlags flags=0); @@ -6777,11 +6627,14 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ -[ 64%] Linking CXX executable ../../../stage/bin/chemdict_tool -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemdict_tool.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o -o ../../../stage/bin/chemdict_tool -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_io.so.2.2.0 ../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_img_alg.so.2.2.0 ../../../stage/lib/libost_img.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 64%] Built target chemdict_tool +[ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_widget.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget.cpp +[ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget_geom_handler.cpp +[ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget_pool.cpp +[ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages/moc_message_widget.cpp In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_main_window.cpp:10: /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/../../../../modules/gui/src/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 46 | MainWindow(QWidget* parent=0, Qt::WindowFlags flags=0); @@ -6796,16 +6649,16 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ -[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_widget_pool.cpp -[ 64%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_compound.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_compound.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_compound.cc -[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages/moc_message_widget.cpp -[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o +[ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages/moc_message_box_widget.cpp -[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o +[ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/messages/moc_log_reader.cpp +[ 62%] Linking CXX executable ../../../stage/bin/chemdict_tool +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemdict_tool.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o -o ../../../stage/bin/chemdict_tool -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_io.so.2.2.0 ../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_img_alg.so.2.2.0 ../../../stage/lib/libost_img.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so +[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6827,9 +6680,16 @@ /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +[ 64%] Built target chemdict_tool /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_background_painter.cpp +[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_base_row.cpp +[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6855,186 +6715,111 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o 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-fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_base_row.cpp -[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp -[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o +[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml 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+cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp +[ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o -c 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-g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp [ 65%] Linking CXX executable ../../../../stage/bin/lddt cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/lddt.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/lddt.dir/lddt.cc.o -o ../../../../stage/bin/lddt -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_io.so.2.2.0 ../../../../stage/lib/libost_mol_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_conop.so.2.2.0 ../../../../stage/lib/libost_db.so.2.2.0 ../../../../stage/lib/libost_seq.so.2.2.0 ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libsqlite3.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so [ 65%] Linking CXX executable ../../stage/bin/molck cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tools/molck && /usr/bin/cmake -E cmake_link_script CMakeFiles/molck.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/molck.dir/main.cc.o -o ../../stage/bin/molck -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../stage/lib/libost_io.so.2.2.0 ../../stage/lib/libost_mol_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../stage/lib/libost_seq_alg.so.2.2.0 ../../stage/lib/libost_conop.so.2.2.0 ../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../stage/lib/libost_seq.so.2.2.0 ../../stage/lib/libost_mol.so.2.2.0 ../../stage/lib/libost_img_alg.so.2.2.0 ../../stage/lib/libost_img.so.2.2.0 ../../stage/lib/libost_info.so.2.2.0 ../../stage/lib/libost_base.so.2.2.0 ../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so -[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp -[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/conop/pymod/wrap_conop.cc:19: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 65%] Built target lddt -[ 65%] Built target molck -[ 66%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_processor.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_processor.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_processor.cc -[ 66%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp -[ 66%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_model.cpp -[ 66%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_heuristic.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_heuristic.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_heuristic.cc -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/conop/pymod/export_compound.cc:19: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_row.cpp -[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp -[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o +[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_table_view.cpp -[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 65%] Built target molck +[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_viewer.cpp -[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o +[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o cd 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modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o +[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_title_row.cpp -[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o +[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_alignment_view_object.cpp -[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o +[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_base_view_object.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/conop/pymod/export_processor.cc:20: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o +[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/conop/pymod/export_heuristic.cc:21: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o +[ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_main_thread_runner.cpp -[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o +[ 66%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_completer_base.cpp -[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o +[ 66%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/seq/_ost_seq.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_seq.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/seq/_ost_seq.so CMakeFiles/_ost_seq.dir/export_sequence.cc.o CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 +[ 66%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_gutter.cpp -[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o +[ 66%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_output_redirector.cpp -[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/seq/base/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/./__init__.pyc\",\"__init__.py\",doraise=True)" +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 66%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_path_completer.cpp -[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o +[ 66%] Built target _ost_seq +make -f modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build.make modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/depend.internal". +Scanning dependencies of target _ost_bindings +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build.make modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 66%] Building CXX object modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_bindings_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o -c /build/openstructure-2.2.0/modules/bindings/pymod/export_tmalign.cc +[ 66%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_completer.cpp -[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o +[ 66%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB 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&& /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_amino_acids.cc -[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter_worker.cpp.o +[ 66%] Building CXX object 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-DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_drop_box.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_drop_box.cpp -[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o +[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_bar.cpp -[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o +[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_manager.cpp -[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o +[ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_bottom_bar.cpp +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_button_box.cpp +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_event_button.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7048,10 +6833,17 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/conop/pymod/export_amino_acids.cc:19: + from /build/openstructure-2.2.0/modules/bindings/pymod/export_tmalign.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_widget_container.cpp +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_bar_widget_holder.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7066,16 +6858,22 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter_worker.hh:29, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_interpreter_worker.cpp:10: + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter.hh:31, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_interpreter.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_side_bar.cpp +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_splitter_panel_bar.cpp +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_tabbed_panel_bar.cpp +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_context_menu.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7090,18 +6888,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter_worker.hh:29, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter.hh:31, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_interpreter.cpp:10: + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_interpreter_worker.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_button_box.cpp -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_event_button.cpp +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_current_selection_node.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7125,6 +6920,8 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_custom_part_node.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7148,17 +6945,6 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_widget_container.cpp -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_panel_bar_widget_holder.cpp -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_side_bar.cpp -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_splitter_panel_bar.cpp -[ 71%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/seq/alg/_ost_seq_alg.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_seq_alg.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/seq/alg/_ost_seq_alg.so CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_seq_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7182,6 +6968,14 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 69%] Building CXX object modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_bindings_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -c /build/openstructure-2.2.0/modules/bindings/pymod/wrap_bindings.cc +[ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_gfx_scene_node.cpp +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_label_node.cpp +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_entity_node.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7205,6 +6999,44 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +make -f modules/db/pymod/CMakeFiles/_ost_db.dir/build.make modules/db/pymod/CMakeFiles/_ost_db.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/_ost_db.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/_ost_db.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/_ost_db.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/_ost_db.dir/depend.internal". +Scanning dependencies of target _ost_db +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/db/pymod/CMakeFiles/_ost_db.dir/build.make modules/db/pymod/CMakeFiles/_ost_db.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 70%] Building CXX object modules/db/pymod/CMakeFiles/_ost_db.dir/export_linear_db.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_db_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_db.dir/export_linear_db.cc.o -c /build/openstructure-2.2.0/modules/db/pymod/export_linear_db.cc +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_entity_part_node.cpp +make -f modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build.make modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/depend.internal". +Scanning dependencies of target _ost_seq_alg +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build.make modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 70%] Building CXX object modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/pymod/wrap_seq_alg.cc +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_render_mode_node.cpp +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_render_modes_node.cpp +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_root_node.cpp +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_scene_node.cpp +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_scene_win.cpp +[ 70%] Building CXX object modules/db/pymod/CMakeFiles/_ost_db.dir/wrap_db.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_db_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_db.dir/wrap_db.cc.o -c /build/openstructure-2.2.0/modules/db/pymod/wrap_db.cc +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_scene_win_model.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7218,58 +7050,44 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/conop/pymod/export_conop.cc:19: + from /build/openstructure-2.2.0/modules/bindings/pymod/wrap_bindings.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/seq/alg/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/seq/alg/pymod/mat.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./mat.pyc\",\"mat.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/seq/alg/pymod/renumber.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./renumber.pyc\",\"renumber.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 71%] Built target _ost_seq_alg -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_tabbed_panel_bar.cpp -[ 71%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_diag.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_diag.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_diag.cc -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_context_menu.cpp -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_current_selection_node.cpp -[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem 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/usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_gfx_scene_node.cpp -[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_label_node.cpp -[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_entity_node.cpp -[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 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-I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_render_mode_node.cpp -[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/scene_win/moc_render_modes_node.cpp -[ 73%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_rule_based.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_rule_based.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_rule_based.cc -[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI 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CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_ring_finder.cc -[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o +[ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool.cpp -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_option_group.cpp -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_options.cpp +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_bar.cpp +[ 71%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/bindings/_ost_bindings.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_bindings.dir/link.txt --verbose=1 +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_option.cpp +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/bindings/_ost_bindings.so CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_bindings.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./__init__.pyc\",\"__init__.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/lga.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./lga.pyc\",\"lga.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/hbplus.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hbplus.pyc\",\"hbplus.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/msms.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./msms.pyc\",\"msms.py\",doraise=True)" +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_manager.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/tmtools.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./tmtools.pyc\",\"tmtools.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/dssp.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./dssp.pyc\",\"dssp.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/clustalw.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./clustalw.pyc\",\"clustalw.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/utils.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./utils.pyc\",\"utils.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/naccess.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./naccess.pyc\",\"naccess.py\",doraise=True)" +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_options_widget.cpp +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/hhblits.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits.pyc\",\"hhblits.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/hhblits2.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits2.pyc\",\"hhblits2.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/hhblits3.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./hhblits3.pyc\",\"hhblits3.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/blast.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./blast.pyc\",\"blast.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/cadscore.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./cadscore.pyc\",\"cadscore.py\",doraise=True)" In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7283,29 +7101,31 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/conop/pymod/export_diag.cc:20: + from /build/openstructure-2.2.0/modules/db/pymod/export_linear_db.cc:21: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/kclust.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./kclust.pyc\",\"kclust.py\",doraise=True)" /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_bar.cpp -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_option.cpp -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_manager.cpp -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_options_widget.cpp -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/bindings/pymod/ialign.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/bindings/./ialign.pyc\",\"ialign.py\",doraise=True)" +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 71%] Built target _ost_bindings +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_measure_tool.cpp -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/tools/moc_tool_options_win.cpp -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_fft_panel.cpp -[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_argand.cpp +[ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_fft_panel.cpp +[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_info_panel.cpp +[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_data_viewer.cpp +[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_overlay_manager_gui.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7319,20 +7139,14 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/conop/pymod/export_rule_based.cc:20: + from /build/openstructure-2.2.0/modules/seq/alg/pymod/wrap_seq_alg.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_info_panel.cpp -[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_data_viewer.cpp -[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_overlay_manager_gui.cpp -[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o +[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, @@ -7347,28 +7161,28 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/conop/pymod/export_ring_finder.cc:19: + from /build/openstructure-2.2.0/modules/db/pymod/wrap_db.cc:21: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o +[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_null_overlay.cpp -[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o +[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_overlay_base.cpp -[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o +[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml 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-I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/thin_splitter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/thin_splitter.cc -[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/perspective.cc.o +[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/perspective.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/perspective.cc.o -c /build/openstructure-2.2.0/modules/gui/src/perspective.cc -[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_registry.cc.o +[ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_registry.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/widget_registry.cc.o -c /build/openstructure-2.2.0/modules/gui/src/widget_registry.cc -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_browser.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_browser.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/file_browser.cc.o -c /build/openstructure-2.2.0/modules/gui/src/file_browser.cc -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_type_dialog.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_type_dialog.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/file_type_dialog.cc.o -c /build/openstructure-2.2.0/modules/gui/src/file_type_dialog.cc In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/data_viewer.hh:37, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_data_viewer.cpp:10: @@ -7386,62 +7200,30 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_viewer.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_viewer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/file_viewer.cc.o -c /build/openstructure-2.2.0/modules/gui/src/file_viewer.cc -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/main.cc.o -c /build/openstructure-2.2.0/modules/gui/src/main.cc -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gl_canvas.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gl_canvas.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/gl_canvas.cc.o -c /build/openstructure-2.2.0/modules/gui/src/gl_canvas.cc -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/dock_widget.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/dock_widget.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/dock_widget.cc.o -c /build/openstructure-2.2.0/modules/gui/src/dock_widget.cc -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main_window.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main_window.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/main_window.cc.o -c /build/openstructure-2.2.0/modules/gui/src/main_window.cc -[ 76%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/conop/_ost_conop.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_conop.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/conop/_ost_conop.so CMakeFiles/_ost_conop.dir/wrap_conop.cc.o CMakeFiles/_ost_conop.dir/export_compound.cc.o CMakeFiles/_ost_conop.dir/export_processor.cc.o CMakeFiles/_ost_conop.dir/export_heuristic.cc.o CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o CMakeFiles/_ost_conop.dir/export_conop.cc.o CMakeFiles/_ost_conop.dir/export_diag.cc.o CMakeFiles/_ost_conop.dir/export_rule_based.cc.o CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_conop.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gl_win.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gl_win.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/gl_win.cc.o -c /build/openstructure-2.2.0/modules/gui/src/gl_win.cc -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_menu.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_menu.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_menu.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_menu.cc -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/widget.cc.o -c /build/openstructure-2.2.0/modules/gui/src/widget.cc -[ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/admin.cc.o +[ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/admin.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/admin.cc.o -c /build/openstructure-2.2.0/modules/gui/src/admin.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/conop/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/conop/./__init__.pyc\",\"__init__.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/conop/pymod/cleanup.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/conop/./cleanup.pyc\",\"cleanup.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 76%] Built target _ost_conop -make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/DependInfo.cmake --color= -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend.internal". -Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend.internal". -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_pool.cc.o +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_pool.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/widget_pool.cc.o -c /build/openstructure-2.2.0/modules/gui/src/widget_pool.cc -Scanning dependencies of target _ost_gfx -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build -make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 78%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/wrap_gfx.cc -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_widget.cc.o +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_widget.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/messages/message_widget.cc.o -c /build/openstructure-2.2.0/modules/gui/src/messages/message_widget.cc -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o -c /build/openstructure-2.2.0/modules/gui/src/messages/message_box_widget.cc -In file included from /build/openstructure-2.2.0/modules/gui/src/dock_widget.cc:25: -/build/openstructure-2.2.0/modules/gui/src/dock_widget.hh:38:77: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] - 38 | DockWidget(const QString& title, QWidget* parent=0, Qt::WindowFlags flags=0); - | ^ -In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/qglobal.h:1304, - from /usr/include/x86_64-linux-gnu/qt5/QtGui/qtguiglobal.h:43, - from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qtwidgetsglobal.h:43, - from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qdockwidget.h:43, - from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QDockWidget:1, - from /build/openstructure-2.2.0/modules/gui/src/dock_widget.hh:31, - from /build/openstructure-2.2.0/modules/gui/src/dock_widget.cc:25: -/usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here - 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} - | ^~~~~~ In file included from /build/openstructure-2.2.0/modules/gui/src/main_window.cc:25: /build/openstructure-2.2.0/modules/gui/src/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 46 | MainWindow(QWidget* parent=0, Qt::WindowFlags flags=0); @@ -7495,16 +7277,28 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qvariant.h:530:17: note: declared here 530 | inline QVariant qVariantFromValue(const T &t) | ^~~~~~~~~~~~~~~~~ -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/log_reader.cc.o +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/log_reader.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/messages/log_reader.cc.o -c /build/openstructure-2.2.0/modules/gui/src/messages/log_reader.cc -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o +In file included from /build/openstructure-2.2.0/modules/gui/src/dock_widget.cc:25: +/build/openstructure-2.2.0/modules/gui/src/dock_widget.hh:38:77: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] + 38 | DockWidget(const QString& title, QWidget* parent=0, Qt::WindowFlags flags=0); + | ^ +In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/qglobal.h:1304, + from /usr/include/x86_64-linux-gnu/qt5/QtGui/qtguiglobal.h:43, + from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qtwidgetsglobal.h:43, + from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qdockwidget.h:43, + from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QDockWidget:1, + from /build/openstructure-2.2.0/modules/gui/src/dock_widget.hh:31, + from /build/openstructure-2.2.0/modules/gui/src/dock_widget.cc:25: +/usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here + 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} + | ^~~~~~ +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/align_properties_painter.cc -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_row.cc -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/background_painter.cc -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/conservation_painter.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7530,8 +7324,6 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/secstr_row.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7557,7 +7349,11 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/conservation_painter.cc +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/secstr_row.cc +[ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_secstr_painter.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, @@ -7609,6 +7405,23 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 76%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/db/_ost_db.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_db.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/db/_ost_db.so CMakeFiles/_ost_db.dir/export_linear_db.cc.o CMakeFiles/_ost_db.dir/wrap_db.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/db/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/db/./__init__.pyc\",\"__init__.py\",doraise=True)" +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 76%] Built target _ost_db +make -f modules/conop/pymod/CMakeFiles/_ost_conop.dir/build.make modules/conop/pymod/CMakeFiles/_ost_conop.dir/depend +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/_ost_conop.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/_ost_conop.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/_ost_conop.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod/CMakeFiles/_ost_conop.dir/depend.internal". +Scanning dependencies of target _ost_conop +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/conop/pymod/CMakeFiles/_ost_conop.dir/build.make modules/conop/pymod/CMakeFiles/_ost_conop.dir/build +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 76%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/wrap_conop.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/wrap_conop.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/wrap_conop.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7659,28 +7472,6 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/wrap_gfx.cc:19: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_selection_painter.cc /build/openstructure-2.2.0/modules/gui/src/main.cc: In static member function 'static QSize ost::gui::GostyMainWindow::GetDefaultSize()': /build/openstructure-2.2.0/modules/gui/src/main.cc:59:65: warning: 'const QRect QDesktopWidget::availableGeometry(int) const' is deprecated: Use QGuiApplication::screens() [-Wdeprecated-declarations] 59 | QRect desktop_geom=QApplication::desktop()->availableGeometry(); @@ -7690,6 +7481,26 @@ /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qdesktopwidget.h:88:67: note: declared here 88 | QT_DEPRECATED_X("Use QGuiApplication::screens()") const QRect availableGeometry(int screen = -1) const; | ^~~~~~~~~~~~~~~~~ +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_selection_painter.cc +/build/openstructure-2.2.0/modules/gui/src/file_browser.cc: In constructor 'ost::gui::FileBrowser::FileBrowser(QWidget*)': +/build/openstructure-2.2.0/modules/gui/src/file_browser.cc:64:13: warning: 'QDirModel::QDirModel(QObject*)' is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] + 64 | model_(new QDirModel), + | ^~~~~~~~~ +In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QDirModel:1, + from /build/openstructure-2.2.0/modules/gui/src/file_browser.cc:55: +/usr/include/x86_64-linux-gnu/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here + 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); + | ^~~~~~~~~ +/build/openstructure-2.2.0/modules/gui/src/file_browser.cc: In constructor 'ost::gui::FileBrowser::FileBrowser(const QString&, QWidget*)': +/build/openstructure-2.2.0/modules/gui/src/file_browser.cc:104:13: warning: 'QDirModel::QDirModel(QObject*)' is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] + 104 | model_(new QDirModel), + | ^~~~~~~~~ +In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QDirModel:1, + from /build/openstructure-2.2.0/modules/gui/src/file_browser.cc:55: +/usr/include/x86_64-linux-gnu/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here + 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); + | ^~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7721,50 +7532,54 @@ /usr/include/x86_64-linux-gnu/qt5/QtGui/qevent.h:219:16: note: declared here 219 | inline int delta() const { return qt4D; } | ^~~~~ -/build/openstructure-2.2.0/modules/gui/src/file_browser.cc: In constructor 'ost::gui::FileBrowser::FileBrowser(QWidget*)': -/build/openstructure-2.2.0/modules/gui/src/file_browser.cc:64:13: warning: 'QDirModel::QDirModel(QObject*)' is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] - 64 | model_(new QDirModel), - | ^~~~~~~~~ -In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QDirModel:1, - from /build/openstructure-2.2.0/modules/gui/src/file_browser.cc:55: -/usr/include/x86_64-linux-gnu/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here - 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); - | ^~~~~~~~~ -/build/openstructure-2.2.0/modules/gui/src/file_browser.cc: In constructor 'ost::gui::FileBrowser::FileBrowser(const QString&, QWidget*)': -/build/openstructure-2.2.0/modules/gui/src/file_browser.cc:104:13: warning: 'QDirModel::QDirModel(QObject*)' is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] - 104 | model_(new QDirModel), - | ^~~~~~~~~ -In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QDirModel:1, - from /build/openstructure-2.2.0/modules/gui/src/file_browser.cc:55: -/usr/include/x86_64-linux-gnu/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here - 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); - | ^~~~~~~~~ -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_text_painter.cc -[ 79%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_scene.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_scene.cc -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_delegate.cc -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_model.cc -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_row.cc -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_search_bar.cc -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.cc -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.cc -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/tick_painter.cc -[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/conop/pymod/wrap_conop.cc:19: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/title_row.cc -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o +[ 78%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_compound.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_compound.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_compound.cc +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/alignment_view_object.cc -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_view_object.cc -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o -c /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_view_object.cc +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gosty_app.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/gosty_app.cc.o -c /build/openstructure-2.2.0/modules/gui/src/gosty_app.cc /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.cc: In member function 'virtual int ost::gui::SequenceTableView::sizeHintForColumn(int) const': /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.cc:480:39: warning: 'int QFontMetrics::width(QChar) const' is deprecated: Use QFontMetrics::horizontalAdvance [-Wdeprecated-declarations] 480 | return this->fontMetrics().width('W'); @@ -7781,6 +7596,10 @@ /usr/include/x86_64-linux-gnu/qt5/QtGui/qfontmetrics.h:110:9: note: declared here 110 | int width(QChar) const; | ^~~~~ +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main_area.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/main_area.cc.o -c /build/openstructure-2.2.0/modules/gui/src/main_area.cc +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_state_saver.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/widget_state_saver.cc.o -c /build/openstructure-2.2.0/modules/gui/src/widget_state_saver.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7794,19 +7613,18 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_scene.cc:19: + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh:31, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, + from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.cc:23: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gosty_app.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/gosty_app.cc.o -c /build/openstructure-2.2.0/modules/gui/src/gosty_app.cc -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main_area.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/main_area.cc.o -c /build/openstructure-2.2.0/modules/gui/src/main_area.cc -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_state_saver.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/widget_state_saver.cc.o -c /build/openstructure-2.2.0/modules/gui/src/widget_state_saver.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7820,32 +7638,23 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh:31, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.cc:23: + from /build/openstructure-2.2.0/modules/conop/pymod/export_compound.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_selection.cc.o +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_selection.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_selection.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_selection.cc -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o -c /build/openstructure-2.2.0/modules/gui/src/widget_geom_handler.cc -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_loader.cc.o +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_loader.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/file_loader.cc.o -c /build/openstructure-2.2.0/modules/gui/src/file_loader.cc -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_bar.cc.o +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_bar.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/button_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/button_bar.cc -[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/drop_box.cc.o +[ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/drop_box.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/drop_box.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/drop_box.cc -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/panel_bar.cc -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/bottom_bar.cc /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.cc: In member function 'void ost::gui::SequenceViewer::MouseWheelEvent(QWheelEvent*)': /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.cc:298:28: warning: 'int QWheelEvent::delta() const' is deprecated: Use angleDelta() [-Wdeprecated-declarations] 298 | int delta = event->delta(); @@ -7865,12 +7674,14 @@ /usr/include/x86_64-linux-gnu/qt5/QtGui/qevent.h:222:28: note: declared here 222 | inline Qt::Orientation orientation() const { return qt4O; } | ^~~~~~~~~~~ -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_box.cc.o +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/panel_bar.cc +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/bottom_bar.cc +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_box.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/button_box.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/button_box.cc -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/event_button.cc.o +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/event_button.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/event_button.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/event_button.cc -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/panel_manager.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7896,35 +7707,14 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/panel_manager.cc +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/panel_widget_container.cc -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh:31, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/scene_selection.cc:19: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/panel_bar_widget_holder.cc +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/side_bar.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/side_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/side_bar.cc /build/openstructure-2.2.0/modules/gui/src/panels/event_button.cc: In member function 'virtual void ost::gui::EventButton::mouseMoveEvent(QMouseEvent*)': /build/openstructure-2.2.0/modules/gui/src/panels/event_button.cc:50:30: warning: 'Qt::DropAction QDrag::start(Qt::DropActions)' is deprecated: Use QDrag::exec() instead [-Wdeprecated-declarations] 50 | drag->start(Qt::MoveAction); @@ -7934,16 +7724,6 @@ /usr/include/x86_64-linux-gnu/qt5/QtGui/qdrag.h:79:20: note: declared here 79 | Qt::DropAction start(Qt::DropActions supportedActions = Qt::CopyAction); | ^~~~~ -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/side_bar.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/side_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/side_bar.cc -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/splitter_panel_bar.cc -[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/tabbed_panel_bar.cc -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_option_group.cc -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_options.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_options.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7962,15 +7742,21 @@ from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/file_loader.cc:19: + from /build/openstructure-2.2.0/modules/gui/src/scene_selection.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_option.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_option.cc +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/splitter_panel_bar.cc +[ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/panels/tabbed_panel_bar.cc +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_option_group.cc +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_options.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_options.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7989,13 +7775,22 @@ from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/panels/panel_bar.cc:21: + from /build/openstructure-2.2.0/modules/gui/src/file_loader.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_option.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_option.cc +[ 82%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/seq/alg/_ost_seq_alg.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_seq_alg.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/seq/alg/_ost_seq_alg.so CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_seq_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/seq/alg/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/seq/alg/pymod/mat.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./mat.pyc\",\"mat.py\",doraise=True)" +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_manager.cc In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh:37, from /build/openstructure-2.2.0/modules/gui/src/gosty_app.cc:33: /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] @@ -8016,46 +7811,15 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_manager.cc -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/seq/alg/pymod/renumber.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/seq/alg/./renumber.pyc\",\"renumber.py\",doraise=True)" +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 82%] Built target _ost_seq_alg +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_win.cc -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool.cc.o +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool.cc -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/mouse_event.cc -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/manipulator.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/manipulator.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/manipulator.cc -[ 83%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_gfx_node.cc -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_widget.cc -[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_bar.cc -In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh:37, - from /build/openstructure-2.2.0/modules/gui/src/scene_selection.cc:35: -/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] - 46 | MainWindow(QWidget* parent=0, Qt::WindowFlags flags=0); - | ^ -In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/qglobal.h:1304, - from /usr/include/x86_64-linux-gnu/qt5/QtCore/qchar.h:43, - from /usr/include/x86_64-linux-gnu/qt5/QtCore/qstring.h:49, - from /usr/include/x86_64-linux-gnu/qt5/QtCore/qdatetime.h:44, - from /usr/include/x86_64-linux-gnu/qt5/QtCore/QTime:1, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/output_redirector.hh:30, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh:31, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/scene_selection.cc:19: -/usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here - 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} - | ^~~~~~ -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/selection_tool.cc -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/measure_tool.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8074,17 +7838,45 @@ from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/panels/tabbed_panel_bar.cc:21: + from /build/openstructure-2.2.0/modules/gui/src/panels/panel_bar.cc:21: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/manipulator.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/manipulator.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/manipulator.cc +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_widget.cc +[ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/tool_bar.cc +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/selection_tool.cc +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/measure_tool.cc +In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh:37, + from /build/openstructure-2.2.0/modules/gui/src/scene_selection.cc:35: +/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] + 46 | MainWindow(QWidget* parent=0, Qt::WindowFlags flags=0); + | ^ +In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/qglobal.h:1304, + from /usr/include/x86_64-linux-gnu/qt5/QtCore/qchar.h:43, + from /usr/include/x86_64-linux-gnu/qt5/QtCore/qstring.h:49, + from /usr/include/x86_64-linux-gnu/qt5/QtCore/qdatetime.h:44, + from /usr/include/x86_64-linux-gnu/qt5/QtCore/QTime:1, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/output_redirector.hh:30, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh:31, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, + from /build/openstructure-2.2.0/modules/gui/src/scene_selection.cc:19: +/usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here + 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} + | ^~~~~~ +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/gutter.cc -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/main_thread_runner.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8110,7 +7902,9 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/main_thread_runner.cc +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.cc In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh:37, from /build/openstructure-2.2.0/modules/gui/src/file_loader.cc:52: @@ -8132,9 +7926,34 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/completer_base.cc -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh:31, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, + from /build/openstructure-2.2.0/modules/gui/src/panels/tabbed_panel_bar.cc:21: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/dir_model.cc /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.cc: In member function 'void ost::gui::OutputRedirector::Write(const String&)': /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.cc:42:23: warning: 'int QTime::elapsed() const' is deprecated: Use QElapsedTimer instead [-Wdeprecated-declarations] @@ -8164,10 +7983,8 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qdatetime.h:235:55: note: declared here 235 | QT_DEPRECATED_X("Use QElapsedTimer instead") void start(); | ^~~~~ -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/path_completer.cc -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_context_parser.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8193,28 +8010,12 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_context_parser.cc +[ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_completer.cc -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_gfx_node.cc:19: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_interpreter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_interpreter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.cc /build/openstructure-2.2.0/modules/gui/src/python_shell/dir_model.cc: In constructor 'ost::gui::OstDirModel::OstDirModel(QObject*)': /build/openstructure-2.2.0/modules/gui/src/python_shell/dir_model.cc:31:18: warning: 'QDirModel::QDirModel(QObject*)' is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] 31 | QDirModel(parent) @@ -8225,8 +8026,6 @@ /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); | ^~~~~~~~~ -[ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_interpreter.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_interpreter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8274,16 +8073,16 @@ /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_interpreter_worker.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_interpreter_worker.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.cc /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o +[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_interpreter_worker.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_interpreter_worker.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.cc +[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_model.cc -[ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o +[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_item.cc -[ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o +[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, @@ -8308,10 +8107,16 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_widget.cc.o +[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_widget.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_shell_widget.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc -[ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o +[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_text_document_layout.cc +[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_tokenizer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_tokenizer.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_tokenizer.cc +[ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_syntax_highlighter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_syntax_highlighter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_syntax_highlighter.cc +[ 85%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_processor.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_processor.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_processor.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8329,25 +8134,25 @@ /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_tokenizer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_tokenizer.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_tokenizer.cc /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_syntax_highlighter.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/python_syntax_highlighter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/python_syntax_highlighter.cc [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/shell_history.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/shell_history.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/shell_history.cc [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/string_literal_positions.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/string_literal_positions.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/string_literal_positions.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/text_logger.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/text_logger.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/text_logger.cc +[ 87%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_heuristic.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_heuristic.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_heuristic.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/state_machine.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/state_machine.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/state_machine.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/state.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/state.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/state.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/transition.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/transition.cc +[ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/transition_guard.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8370,8 +8175,6 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o -c /build/openstructure-2.2.0/modules/gui/src/python_shell/transition_guard.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/context_menu.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, @@ -8388,15 +8191,11 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh:29, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.cc:21: + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh:31, + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_model.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 88%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_symmetry_node.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8410,16 +8209,17 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh:29, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh:31, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc:25: + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_item.hh:25, + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_item.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8434,14 +8234,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh:29, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh:31, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_model.cc:19: + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.cc:21: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/current_selection_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/current_selection_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/current_selection_node.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8455,16 +8256,20 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_item.hh:25, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_item.cc:20: + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh:29, + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh:31, + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.hh:28, + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell.cc:24: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/current_selection_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/current_selection_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/current_selection_node.cc +[ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/custom_part_node.cc +[ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_node.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8481,15 +8286,13 @@ from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell.cc:24: + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/custom_part_node.cc /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_model.cc: In member function 'virtual Qt::ItemFlags ost::gui::PythonNamespaceTreeModel::flags(const QModelIndex&) const': /build/openstructure-2.2.0/modules/gui/src/python_shell/python_namespace_tree_model.cc:110:12: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::ItemFlag; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 110 | return 0; @@ -8506,12 +8309,77 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ -[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_node.cc -[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o +[ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/label_node.cc -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_node.cc +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/conop/pymod/export_processor.cc:20: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_part_node.cc +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh:29, + from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh:31, + from /build/openstructure-2.2.0/modules/gui/src/python_shell/text_logger.hh:26, + from /build/openstructure-2.2.0/modules/gui/src/python_shell/text_logger.cc:19: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/conop/pymod/export_heuristic.cc:21: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/gfx_scene_node.cc /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc: In constructor 'ost::gui::PythonShellWidget::PythonShellWidget(QWidget*)': /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc:79:38: warning: 'int QFontMetrics::width(const QString&, int) const' is deprecated: Use QFontMetrics::horizontalAdvance [-Wdeprecated-declarations] 79 | setTabStopWidth(2*metrics.width(" ")); @@ -8573,55 +8441,6 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh:29, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh:31, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/text_logger.hh:26, - from /build/openstructure-2.2.0/modules/gui/src/python_shell/text_logger.cc:19: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_part_node.cc -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/gfx_scene_node.cc -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/render_mode_node.cc -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_symmetry_node.cc:19: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.2.0/modules/gui/src/python_shell/transition.hh:23, @@ -8632,10 +8451,8 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/render_modes_node.cc -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/root_node.cc +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/render_mode_node.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8659,6 +8476,8 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/render_modes_node.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8682,14 +8501,12 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/root_node.cc +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.cc -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o -c /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win_model.cc -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/map_tool.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/map_tool.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/map_tool.cc -[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/argand.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8708,13 +8525,25 @@ from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_node.cc:19: + from /build/openstructure-2.2.0/modules/gui/src/scene_win/current_selection_node.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/map_tool.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/tools/map_tool.cc.o -c /build/openstructure-2.2.0/modules/gui/src/tools/map_tool.cc +[ 88%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_amino_acids.cc +[ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/argand.cc +[ 88%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_conop.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_conop.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_conop.cc +[ 88%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_diag.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_diag.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_diag.cc +[ 88%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_rule_based.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_rule_based.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_rule_based.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8733,23 +8562,23 @@ from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/scene_win/current_selection_node.cc:20: + from /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_node.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o +[ 88%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o -c /build/openstructure-2.2.0/modules/conop/pymod/export_ring_finder.cc +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel.cc -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/draw_overlay.cc -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/drawing_functions.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8768,21 +8597,13 @@ from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/scene_win/render_modes_node.cc:19: + from /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.cc:23: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/fft_panel.cc -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/info_panel.cc -[ 91%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_gfx_obj.cc -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/img2qt.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8801,7 +8622,7 @@ from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.cc:23: + from /build/openstructure-2.2.0/modules/gui/src/scene_win/render_modes_node.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -8820,47 +8641,6 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qstring.h:1507:20: note: declared here 1507 | inline QByteArray &QByteArray::append(const QString &s) | ^~~~~~~~~~ -/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'virtual void ost::img::gui::DataViewerPanelBase::paintEvent(QPaintEvent*)': -/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:440:70: warning: 'static bool QPixmapCache::find(const QString&, QPixmap&)' is deprecated: Use bool find(const QString &, QPixmap *) instead [-Wdeprecated-declarations] - 440 | if (update_raster_image_ || ( !QPixmapCache::find(cache_key, pm))) { - | ^ -In file included from /usr/include/x86_64-linux-gnu/qt5/QtGui/QPixmapCache:1, - from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:40: -/usr/include/x86_64-linux-gnu/qt5/QtGui/qpixmapcache.h:81:17: note: declared here - 81 | static bool find(const QString &key, QPixmap &pixmap); - | ^~~~ -/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'virtual void ost::img::gui::DataViewerPanelBase::wheelEvent(QWheelEvent*)': -/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:613:19: warning: 'int QWheelEvent::delta() const' is deprecated: Use angleDelta() [-Wdeprecated-declarations] - 613 | if(event->delta()>0) { - | ^ -In file included from /usr/include/x86_64-linux-gnu/qt5/QtGui/QResizeEvent:1, - from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:36: -/usr/include/x86_64-linux-gnu/qt5/QtGui/qevent.h:219:16: note: declared here - 219 | inline int delta() const { return qt4D; } - | ^~~~~ -/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'void ost::img::gui::DataViewerPanelBase::draw_pixel_values(QPainter&)': -/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:1074:62: warning: 'int QFontMetrics::width(const QString&, int) const' is deprecated: Use QFontMetrics::horizontalAdvance [-Wdeprecated-declarations] - 1074 | int string_w=painter.fontMetrics().width(value_string); - | ^ -In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qwidget.h:50, - from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QWidget:1, - from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.hh:46, - from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:34: -/usr/include/x86_64-linux-gnu/qt5/QtGui/qfontmetrics.h:106:9: note: declared here - 106 | int width(const QString &, int len = -1) const; - | ^~~~~ -/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:1090:62: warning: 'int QFontMetrics::width(const QString&, int) const' is deprecated: Use QFontMetrics::horizontalAdvance [-Wdeprecated-declarations] - 1090 | int string_w=painter.fontMetrics().width(value_string); - | ^ -In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qwidget.h:50, - from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QWidget:1, - from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.hh:46, - from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:34: -/usr/include/x86_64-linux-gnu/qt5/QtGui/qfontmetrics.h:106:9: note: declared here - 106 | int width(const QString &, int len = -1) const; - | ^~~~~ -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/mask_overlay.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8874,26 +8654,72 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh:31, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, - from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc:26: + from /build/openstructure-2.2.0/modules/conop/pymod/export_amino_acids.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/null_overlay.cc -[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_base.cc -[ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager.cc -[ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager_gui.cc +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/drawing_functions.cc +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/conop/pymod/export_diag.cc:20: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/map_slab.hh:26, + from /build/openstructure-2.2.0/modules/gui/src/tools/map_tool.cc:21: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/conop/pymod/export_conop.cc:19: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/fft_panel.cc /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.cc: In member function 'void ost::gui::SceneWin::RowsInserted(const QModelIndex&, int, int)': /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.cc:117:39: warning: 'QModelIndex QModelIndex::child(int, int) const' is deprecated: Use QAbstractItemModel::index [-Wdeprecated-declarations] 117 | model->select(parent.child(start,0),QItemSelectionModel::ClearAndSelect|QItemSelectionModel::Rows); @@ -8918,13 +8744,17 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_gfx_obj.cc:19: + from /build/openstructure-2.2.0/modules/conop/pymod/export_ring_finder.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/info_panel.cc +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/img2qt.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8932,21 +8762,100 @@ from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, from /usr/include/boost/shared_ptr.hpp:17, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/map_slab.hh:26, - from /build/openstructure-2.2.0/modules/gui/src/tools/map_tool.cc:21: + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/conop/pymod/export_rule_based.cc:20: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/mask_overlay.cc +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/null_overlay.cc +[ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_base.cc +[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager.cc +[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager_gui.cc +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh:31, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh:26, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main.hh:23, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/gosty_app.hh:28, + from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc:26: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o +/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'virtual void ost::img::gui::DataViewerPanelBase::paintEvent(QPaintEvent*)': +/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:440:70: warning: 'static bool QPixmapCache::find(const QString&, QPixmap&)' is deprecated: Use bool find(const QString &, QPixmap *) instead [-Wdeprecated-declarations] + 440 | if (update_raster_image_ || ( !QPixmapCache::find(cache_key, pm))) { + | ^ +In file included from /usr/include/x86_64-linux-gnu/qt5/QtGui/QPixmapCache:1, + from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:40: +/usr/include/x86_64-linux-gnu/qt5/QtGui/qpixmapcache.h:81:17: note: declared here + 81 | static bool find(const QString &key, QPixmap &pixmap); + | ^~~~ +/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'virtual void ost::img::gui::DataViewerPanelBase::wheelEvent(QWheelEvent*)': +/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:613:19: warning: 'int QWheelEvent::delta() const' is deprecated: Use angleDelta() [-Wdeprecated-declarations] + 613 | if(event->delta()>0) { + | ^ +In file included from /usr/include/x86_64-linux-gnu/qt5/QtGui/QResizeEvent:1, + from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:36: +/usr/include/x86_64-linux-gnu/qt5/QtGui/qevent.h:219:16: note: declared here + 219 | inline int delta() const { return qt4D; } + | ^~~~~ +/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'void ost::img::gui::DataViewerPanelBase::draw_pixel_values(QPainter&)': +/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:1074:62: warning: 'int QFontMetrics::width(const QString&, int) const' is deprecated: Use QFontMetrics::horizontalAdvance [-Wdeprecated-declarations] + 1074 | int string_w=painter.fontMetrics().width(value_string); + | ^ +In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qwidget.h:50, + from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QWidget:1, + from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.hh:46, + from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:34: +/usr/include/x86_64-linux-gnu/qt5/QtGui/qfontmetrics.h:106:9: note: declared here + 106 | int width(const QString &, int len = -1) const; + | ^~~~~ +/build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:1090:62: warning: 'int QFontMetrics::width(const QString&, int) const' is deprecated: Use QFontMetrics::horizontalAdvance [-Wdeprecated-declarations] + 1090 | int string_w=painter.fontMetrics().width(value_string); + | ^ +In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qwidget.h:50, + from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QWidget:1, + from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.hh:46, + from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.cc:34: +/usr/include/x86_64-linux-gnu/qt5/QtGui/qfontmetrics.h:106:9: note: declared here + 106 | int width(const QString &, int len = -1) const; + | ^~~~~ +[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/pointlist_overlay.cc -[ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o +[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/pointlist_overlay_base.cc -[ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o +[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/strategies.cc -[ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o +[ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o -c /build/openstructure-2.2.0/modules/gui/src/data_viewer/viewer_normalizer.cc In file included from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc:37: /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/dock_widget.hh:38:77: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] @@ -8987,10 +8896,9 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ -[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_entity.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_entity.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_entity.cc -[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_surface.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_surface.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_surface.cc +[ 91%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/conop/_ost_conop.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_conop.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/conop/_ost_conop.so CMakeFiles/_ost_conop.dir/wrap_conop.cc.o CMakeFiles/_ost_conop.dir/export_compound.cc.o CMakeFiles/_ost_conop.dir/export_processor.cc.o CMakeFiles/_ost_conop.dir/export_heuristic.cc.o CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o CMakeFiles/_ost_conop.dir/export_conop.cc.o CMakeFiles/_ost_conop.dir/export_diag.cc.o CMakeFiles/_ost_conop.dir/export_rule_based.cc.o CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_conop.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc: In constructor 'ost::img::gui::DataViewer::DataViewer(QWidget*, const ost::img::ImageHandle&, const QString&)': /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc:75:14: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 75 | lastmouse_() @@ -9019,38 +8927,59 @@ /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qdesktopwidget.h:88:67: note: declared here 88 | QT_DEPRECATED_X("Use QGuiApplication::screens()") const QRect availableGeometry(int screen = -1) const; | ^~~~~~~~~~~~~~~~~ -[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primitives.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_primitives.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_primitives.cc -[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primlist.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_primlist.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_primlist.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/conop/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/conop/./__init__.pyc\",\"__init__.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/conop/pymod/cleanup.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/conop/./cleanup.pyc\",\"cleanup.py\",doraise=True)" +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 91%] Built target _ost_conop +make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend make -f modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build.make modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/DependInfo.cmake --color= +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/DependInfo.cmake --color= +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend.internal". +Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/depend.internal". Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/depend.internal". Scanning dependencies of target _ost_mol_alg make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build.make modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 92%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o +Scanning dependencies of target _ost_gfx +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build +[ 91%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o +[ 91%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/wrap_mol_alg.cc -[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_scene_observer.cc -[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_render_options.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_render_options.cc -[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_color.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_color.cc -[ 92%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o +[ 91%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o +[ 92%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o +[ 92%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_svd_superpose.cc -[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gradient.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_gradient.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_gradient.cc -[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_color_ops.cc -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_clash.cc -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_trajectory_analysis.cc -[ 94%] Linking CXX shared library ../../../stage/lib/libost_gui.so +make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_structure_analysis.cc +[ 92%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o +[ 92%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o +[ 92%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_contact_overlap.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_accessibility.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_sec_structure.cc +[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/wrap_gfx.cc +[ 92%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_non_standard.cc +[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_scene.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_scene.cc +[ 92%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_gfx_node.cc +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_symmetry_node.cc +[ 93%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o -c 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/usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, @@ -9066,7 +8995,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_entity.cc:19: + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_accessibility.cc:21: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9086,7 +9015,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_surface.cc:19: + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_clash.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9103,6 +9032,49 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_trajectory_analysis.cc:19: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_structure_analysis.cc:19: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, from /build/openstructure-2.2.0/modules/mol/alg/pymod/wrap_mol_alg.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( @@ -9110,6 +9082,63 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_svd_superpose.cc:23: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_contact_overlap.cc:1: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_sec_structure.cc:21: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -9126,7 +9155,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_primitives.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_gfx_node.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9146,7 +9175,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_scene_observer.cc:1: + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_non_standard.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9166,7 +9195,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_primlist.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/wrap_gfx.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9186,7 +9215,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_gradient.cc:24: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_symmetry_node.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9206,7 +9235,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_render_options.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_scene.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9226,15 +9255,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_color.cc:19: + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_molck.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 94%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_glwin_base.cc +[ 93%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_entity_to_density.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9248,13 +9277,29 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_svd_superpose.cc:23: + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_membrane.cc:21: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_gfx_obj.cc +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_entity.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_entity.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_entity.cc +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_surface.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_surface.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_surface.cc +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primitives.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_primitives.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_primitives.cc +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primlist.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_primlist.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_primlist.cc +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_scene_observer.cc +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_render_options.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_render_options.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_render_options.cc +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_color.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_color.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9268,13 +9313,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_clash.cc:19: + from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_entity_to_density.cc:23: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 93%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gradient.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_gradient.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_gradient.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9288,13 +9335,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_color_ops.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_gfx_obj.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 94%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_color_ops.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9308,23 +9357,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_trajectory_analysis.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_entity.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 94%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_exporter.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_exporter.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_exporter.cc -[ 94%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_bitmap.cc -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_structure_analysis.cc -[ 94%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_map.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_map.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_map.cc -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_contact_overlap.cc +[ 94%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_glwin_base.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9338,17 +9379,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_glwin_base.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_primitives.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_accessibility.cc -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_sec_structure.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9362,17 +9399,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_exporter.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_surface.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_non_standard.cc -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_molck.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9386,7 +9419,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_bitmap.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_scene_observer.cc:1: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9406,17 +9439,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_structure_analysis.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_render_options.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_membrane.cc -[ 94%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/pymod/export_entity_to_density.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9430,13 +9459,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gfx/pymod/export_map.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_primlist.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 94%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_exporter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_exporter.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_exporter.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9450,13 +9481,17 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_contact_overlap.cc:1: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_color.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 94%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_bitmap.cc +[ 94%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_map.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gfx.dir/export_map.cc.o -c /build/openstructure-2.2.0/modules/gfx/pymod/export_map.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9470,7 +9505,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_sec_structure.cc:21: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_gradient.cc:24: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9490,7 +9525,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_accessibility.cc:21: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_color_ops.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9510,7 +9545,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_non_standard.cc:19: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_glwin_base.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9530,7 +9565,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_membrane.cc:21: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_exporter.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9550,7 +9585,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_molck.cc:20: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_bitmap.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9570,21 +9605,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/mol/alg/pymod/export_entity_to_density.cc:23: + from /build/openstructure-2.2.0/modules/gfx/pymod/export_map.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 94%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/gfx/_ost_gfx.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/pymod/gradients.xml /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/scene/gradients.xml -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_gfx.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/gfx/_ost_gfx.so CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o CMakeFiles/_ost_gfx.dir/export_scene.cc.o CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o CMakeFiles/_ost_gfx.dir/export_entity.cc.o CMakeFiles/_ost_gfx.dir/export_surface.cc.o CMakeFiles/_ost_gfx.dir/export_primitives.cc.o CMakeFiles/_ost_gfx.dir/export_primlist.cc.o CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o CMakeFiles/_ost_gfx.dir/export_render_options.cc.o CMakeFiles/_ost_gfx.dir/export_color.cc.o CMakeFiles/_ost_gfx.dir/export_gradient.cc.o CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o CMakeFiles/_ost_gfx.dir/export_exporter.cc.o CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o CMakeFiles/_ost_gfx.dir/export_map.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_gfx.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../stage/lib/libost_img_alg.so.2.2.0 ../../../stage/lib/libost_img.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libOpenGL.so /usr/lib/x86_64-linux-gnu/libGLX.so /usr/lib/x86_64-linux-gnu/libGLU.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/gfx/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gfx/./__init__.pyc\",\"__init__.py\",doraise=True)" -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/gfx/pymod/py_gfx_obj.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gfx/./py_gfx_obj.pyc\",\"py_gfx_obj.py\",doraise=True)" -make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 94%] Built target _ost_gfx cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_gui.so.2.2.0 ../../../stage/lib/libost_gui.so.2.2 ../../../stage/lib/libost_gui.so make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 94%] Built target ost_gui @@ -9604,8 +9631,8 @@ [ 96%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/gosty.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/gosty.dir/gosty.cc.o -c /build/openstructure-2.2.0/modules/gui/src/gosty.cc [ 96%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/moc_gosty.cpp.o -[ 96%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/qrc_dngr.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/gosty.dir/moc_gosty.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gosty.cpp +[ 96%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/qrc_dngr.cpp.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/gosty.dir/qrc_dngr.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/qrc_dngr.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, @@ -9635,6 +9662,14 @@ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/gosty.dir/gosty.cc.o CMakeFiles/gosty.dir/moc_gosty.cpp.o CMakeFiles/gosty.dir/qrc_dngr.cpp.o -o ../../../stage/lib/openstructure/libexec/gosty -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_gui.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../stage/lib/libost_gfx.so.2.2.0 /usr/lib/x86_64-linux-gnu/libOpenGL.so /usr/lib/x86_64-linux-gnu/libGLX.so /usr/lib/x86_64-linux-gnu/libGLU.so ../../../stage/lib/libost_io.so.2.2.0 /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so ../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_img_alg.so.2.2.0 ../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 96%] Built target gosty +[ 96%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/gfx/_ost_gfx.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/pymod/gradients.xml /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/scene/gradients.xml +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_gfx.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../stage/lib/python3.9/dist-packages/ost/gfx/_ost_gfx.so CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o CMakeFiles/_ost_gfx.dir/export_scene.cc.o CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o CMakeFiles/_ost_gfx.dir/export_entity.cc.o CMakeFiles/_ost_gfx.dir/export_surface.cc.o CMakeFiles/_ost_gfx.dir/export_primitives.cc.o CMakeFiles/_ost_gfx.dir/export_primlist.cc.o CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o CMakeFiles/_ost_gfx.dir/export_render_options.cc.o CMakeFiles/_ost_gfx.dir/export_color.cc.o CMakeFiles/_ost_gfx.dir/export_gradient.cc.o CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o CMakeFiles/_ost_gfx.dir/export_exporter.cc.o CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o CMakeFiles/_ost_gfx.dir/export_map.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../stage/lib/libost_gfx.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../stage/lib/libost_img_alg.so.2.2.0 ../../../stage/lib/libost_img.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libOpenGL.so /usr/lib/x86_64-linux-gnu/libGLX.so /usr/lib/x86_64-linux-gnu/libGLU.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/gfx/pymod/__init__.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gfx/./__init__.pyc\",\"__init__.py\",doraise=True)" +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.2.0/modules/gfx/pymod/py_gfx_obj.py\",\"/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/gfx/./py_gfx_obj.pyc\",\"py_gfx_obj.py\",doraise=True)" +make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 96%] Built target _ost_gfx [ 97%] Linking CXX shared module ../../../../stage/lib/python3.9/dist-packages/ost/mol/alg/_ost_mol_alg.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_mol_alg.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro -shared -o ../../../../stage/lib/python3.9/dist-packages/ost/mol/alg/_ost_mol_alg.so CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib: ../../../../stage/lib/libost_mol_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libpython3.9.so /usr/lib/x86_64-linux-gnu/libboost_python39.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../../stage/lib/libost_conop.so.2.2.0 ../../../../stage/lib/libost_db.so.2.2.0 ../../../../stage/lib/libost_seq.so.2.2.0 ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libsqlite3.so @@ -9698,13 +9733,10 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/io/pymod/export_mmcif_io.cc:19: + from /build/openstructure-2.2.0/modules/io/pymod/export_pdb_io.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9718,13 +9750,16 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/io/pymod/export_pdb_io.cc:19: + from /build/openstructure-2.2.0/modules/io/pymod/export_mmcif_io.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9763,35 +9798,37 @@ make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/wrap_gui.cc.o +[ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/wrap_gui.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/wrap_gui.cc [ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_message_widget.cc.o -[ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o -[ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_win.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_alignment_view.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_message_widget.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_message_widget.cc +[ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_win.cc.o [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_tool.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_gl_win.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_gl_win.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_tool.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_tool.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_py_shell.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_py_shell.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_py_shell.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gosty.cc.o -[ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_win.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 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-I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_scene_win.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_scene_win.cc +[ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS 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-DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_perspective.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_perspective.cc -[ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o +[ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_sip_handler.cc +[ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_scene_selection.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_main_area.cc.o -[ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_panels.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_main_area.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_main_area.cc +[ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_panels.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_panels.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_panels.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_menu_bar.cc +[100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_loader.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_file_loader.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_file_loader.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9805,7 +9842,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_message_widget.cc:20: + from /build/openstructure-2.2.0/modules/gui/pymod/export_perspective.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9825,7 +9862,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_sequence_viewer.cc:20: + from /build/openstructure-2.2.0/modules/gui/pymod/wrap_gui.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9845,7 +9882,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_menu_bar.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/export_tool.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9865,10 +9902,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/wrap_gui.cc:20: + from /build/openstructure-2.2.0/modules/gui/pymod/export_main_area.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9882,7 +9922,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_perspective.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/export_py_shell.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9902,16 +9942,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_gl_win.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/export_message_widget.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9925,7 +9962,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_alignment_view.cc:20: + from /build/openstructure-2.2.0/modules/gui/pymod/export_menu_bar.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9945,7 +9982,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_tool.cc:20: + from /build/openstructure-2.2.0/modules/gui/pymod/export_panels.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9965,7 +10002,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_scene_win.cc:20: + from /build/openstructure-2.2.0/modules/gui/pymod/export_sequence_viewer.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9985,7 +10022,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_scene_selection.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/export_file_loader.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -10022,7 +10059,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_main_area.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/export_gl_win.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -10045,7 +10082,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_py_shell.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/export_gosty.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -10065,13 +10102,33 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_gosty.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/export_alignment_view.cc:20: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/openstructure-2.2.0/modules/gui/pymod/export_scene_win.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -10085,15 +10142,13 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_panels.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/export_scene_selection.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_loader.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_file_loader.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_file_loader.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_file_viewer.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_widget.cc.o @@ -10104,6 +10159,10 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_data_viewer.cc +[100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_overlay.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_overlay.cc +[100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_overlay_manager.cc In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh:37, from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.hh:41, from /build/openstructure-2.2.0/modules/gui/pymod/export_gosty.cc:39: @@ -10125,10 +10184,6 @@ /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ -[100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_overlay.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_overlay.cc -[100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_overlay_manager.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -10162,7 +10217,9 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_file_loader.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/sip_handler.hh:22, + from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.hh:30, + from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.cc:26: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -10182,7 +10239,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_file_viewer.cc:19: + from /build/openstructure-2.2.0/modules/gui/pymod/export_overlay_manager.cc:16: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -10222,9 +10279,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/sip_handler.hh:22, - from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.hh:30, - from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.cc:26: + from /build/openstructure-2.2.0/modules/gui/pymod/export_file_viewer.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -10271,56 +10326,36 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/openstructure-2.2.0/modules/gui/pymod/export_overlay_manager.cc:16: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh:37, - from /build/openstructure-2.2.0/modules/gui/pymod/export_data_viewer.cc:27: + from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.hh:41, + from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.cc:26: /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 46 | MainWindow(QWidget* parent=0, Qt::WindowFlags flags=0); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/qglobal.h:1304, from /usr/include/x86_64-linux-gnu/qt5/QtGui/qtguiglobal.h:43, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qtwidgetsglobal.h:43, - from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qmainwindow.h:43, - from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QMainWindow:1, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main_window.hh:35, - from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh:37, - from /build/openstructure-2.2.0/modules/gui/pymod/export_data_viewer.cc:27: + from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qwidget.h:43, + from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QWidget:1, + from /build/openstructure-2.2.0/modules/gui/pymod/sip_handler.hh:24, + from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.hh:30, + from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.cc:26: /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ In file included from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh:37, - from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.hh:41, - from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.cc:26: + from /build/openstructure-2.2.0/modules/gui/pymod/export_data_viewer.cc:27: /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 46 | MainWindow(QWidget* parent=0, Qt::WindowFlags flags=0); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/qglobal.h:1304, from /usr/include/x86_64-linux-gnu/qt5/QtGui/qtguiglobal.h:43, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qtwidgetsglobal.h:43, - from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qwidget.h:43, - from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QWidget:1, - from /build/openstructure-2.2.0/modules/gui/pymod/sip_handler.hh:24, - from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.hh:30, - from /build/openstructure-2.2.0/modules/gui/pymod/data_viewer_proxy.cc:26: + from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qmainwindow.h:43, + from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QMainWindow:1, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/main_window.hh:35, + from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh:37, + from /build/openstructure-2.2.0/modules/gui/pymod/export_data_viewer.cc:27: /usr/include/x86_64-linux-gnu/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ @@ -10406,7 +10441,7 @@ /usr/bin/cmake -E cmake_progress_start /build/openstructure-2.2.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' dh_auto_test - cd obj-x86_64-linux-gnu && make -j15 check ARGS\+=-j15 + cd obj-x86_64-linux-gnu && make -j16 check ARGS\+=-j16 make[1]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/openstructure-2.2.0 -B/build/openstructure-2.2.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 check @@ -10425,9 +10460,9 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost_startup.py.dir/DependInfo.cmake --color= make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/depend -make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_dng.dir/DependInfo.cmake --color= +make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/subst_ost.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' @@ -10435,956 +10470,942 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/ost_config.in -DOUT_FILE=ost_config -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/build +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/ost_startup.py.in -DOUT_FILE=ost_startup.py -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake +make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.dir/build make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/build -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/dng.in -DOUT_FILE=dng -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake +make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.2.0/scripts/ost.in -DOUT_FILE=ost -DBUILD_TYPE=Debug -DPython_EXECUTABLE=/usr/bin/python3.9 -DPython_VERSION=3.9.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.9/dist-packages/ -P /build/openstructure-2.2.0/cmake_support/substitute.cmake cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/bin make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 0%] Built target subst_ost_config -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/openstructure/libexec make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/openstructure/libexec +[ 0%] Built target subst_ost_config [ 0%] Built target subst_ost_startup.py -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests -[ 0%] Built target subst_ost [ 0%] Built target subst_dng +[ 0%] Built target subst_ost +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 0%] Built target create_stage make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/depend +make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/DependInfo.cmake --color= -make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom_headers.dir/DependInfo.cmake --color= make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config_headers.dir/DependInfo.cmake --color= make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/depend -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base_headers.dir/DependInfo.cmake --color= -make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/export_helper/vector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/export_helper/vector.hh make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/info/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/ost_info_headers.dir/DependInfo.cmake --color= make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/depend -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/DependInfo.cmake --color= -make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./alignment_opts.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./alignment_opts.hh -make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/build +make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./alignment_opts.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./alignment_opts.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/DependInfo.cmake --color= -make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./def.hh -make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/export_helper/generic_property_def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/export_helper/generic_property_def.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/export_helper/vector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/export_helper/vector.hh +make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop_headers.dir/DependInfo.cmake --color= +make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/build +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./base.hh +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/export_helper/generic_property_def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/export_helper/generic_property_def.hh +make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info.hh +make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./clip_alignment.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./clip_alignment.hh make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/pointer_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/pointer_iterator.hh -make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/depend make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./def.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./config.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_impl.hh +make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/build +make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./conop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./conop.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_group.hh +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/DependInfo.cmake --color= -make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./clip_alignment.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./clip_alignment.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./exc.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./exc.hh make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./conservation.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./conservation.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/export_helper/pair_to_tuple_conv.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/export_helper/pair_to_tuple_conv.hh -make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img_headers.dir/DependInfo.cmake --color= +make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_error.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./dllexport.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./dllexport.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/DependInfo.cmake --color= make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_group.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui_headers.dir/DependInfo.cmake --color= -make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./geom.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./geom.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./conop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./conop.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./conservation.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./conservation.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./dllexport.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./dllexport.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./exc.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./exc.hh make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_error.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_prop.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io_headers.dir/DependInfo.cmake --color= +make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./processor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./processor.hh +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./sqlite_wrap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./sqlite_wrap.hh make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./contact_prediction_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./contact_prediction_score.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/export_helper/vec_to_list_conv.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/export_helper/vec_to_list_conv.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./version.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./version.hh +make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_gen.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./geom.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./geom.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_prop.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_impl.hh +make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/raster_image/raster_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/raster_image/raster_image.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./contact_prediction_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./contact_prediction_score.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_gen.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/test_utils/compare_files.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/test_utils/compare_files.hh +make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_impl.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./anisotropic.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./anisotropic.hh make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./contact_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./contact_weight_matrix.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./processor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./processor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/config/./version.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./version.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./amino_acids.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./amino_acids.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_impl.hh -make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_impl_fw.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./sqlite_wrap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./sqlite_wrap.hh -make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/build -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen_s.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_gen_s.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/test_utils/compare_files.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/test_utils/compare_files.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/raster_image/raster_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/raster_image/raster_image.hh make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_option_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_option_group.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./sqlite_conv.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./sqlite_conv.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/chemdict_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/chemdict_parser.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/dispatch.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/dispatch.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen_s.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_gen_s.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./contact_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./contact_weight_matrix.hh -make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./generic_property.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./generic_property.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./svd_superpose.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./svd_superpose.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat2.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./sqlite_conv.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./sqlite_conv.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_impl_fw.hh +make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./distance_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./distance_map.hh +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/src/./wrap_tmalign.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/bindings/./wrap_tmalign.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./auto_correlate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./auto_correlate.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./amino_acids.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./amino_acids.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat2.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_iterator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_option_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_option_group.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./diag.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./diag.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/star_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/star_parser.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./generic_property.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./generic_property.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/atom_impl_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_gen_s.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_gen_s.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/dispatch.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/dispatch.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./distance_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./distance_map.hh [ 0%] Built target ost_config_headers -make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/chain_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_group.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./diag.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./diag.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat3.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/mmcif_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/mmcif_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./clear.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./clear.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_spec.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_spec.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./entropy.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./entropy.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state.hh +make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config.dir/DependInfo.cmake --color= cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./integrity_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./integrity_error.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/chain_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./sec_structure_segments.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./sec_structure_segments.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat4.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat4.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./entropy.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./entropy.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat3.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_list.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./linear_indexer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./linear_indexer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_item.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_item.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./clip_min_max.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./clip_min_max.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/mmcif_info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/mmcif_info.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./clear.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./clear.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./model_check.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./model_check.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/impl/sequence_list_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/impl/sequence_list_iterator.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/bindings/src/./wrap_tmalign.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/bindings/./wrap_tmalign.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/connector_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/connector_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./global_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./global_align.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_iso_spec.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_iso_spec.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./invalid_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./invalid_handle.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./local_dist_diff_test.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./local_dist_diff_test.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/chain_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/mmcif_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/mmcif_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./mat4.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./mat4.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./global_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./global_align.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_handle.hh +make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/build +[ 0%] Built target ost_bindings_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./heuristic.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./heuristic.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./paged_array.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./paged_array.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/selection_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/selection_tool.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_bar.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_group.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./sec_structure_segments.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./sec_structure_segments.hh +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'modules/config/CMakeFiles/ost_config.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./invalid_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./invalid_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./clip_min_max.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./clip_min_max.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./ptr_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./ptr_observer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./ins_del.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./ins_del.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/mmcif_info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/mmcif_info.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_item.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_item.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./alignment_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./alignment_handle.hh +[ 0%] Built target ost_config +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/chain_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/selection_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/selection_tool.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./conjugate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./conjugate.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/io_profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/io_profile.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./binary_container.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./binary_container.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./heuristic.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./heuristic.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/connector_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/connector_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_list.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/measure_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/measure_tool.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./ins_del.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./ins_del.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec2.hh -[ 0%] Built target ost_bindings_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/dihedral.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/dihedral.hh -make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./distance_test_common.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./distance_test_common.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./ptr_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./ptr_observer.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/config/CMakeFiles/ost_config.dir/DependInfo.cmake --color= cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./extract_data_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./extract_data_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./log.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./log.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./local_dist_diff_test.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./local_dist_diff_test.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./local_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./local_align.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/connector_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/connector_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_base_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_base_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/io_profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/io_profile.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/measure_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/measure_tool.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./log_sink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./log_sink.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound_lib.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound_lib.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./convolute.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./convolute.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec2.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/db/src/./extract_data_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/db/./extract_data_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./merge_pairwise_alignments.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./merge_pairwise_alignments.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/dcd_io.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/dcd_io.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/entity_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/entity_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec3.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./local_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./local_align.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_option.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_option.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_path.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_path.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound_lib.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound_lib.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./log.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./log.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/connector_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/connector_impl_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_def.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_def.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./distance_rmsd_test.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./distance_rmsd_test.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./profile.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./distance_test_common.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./distance_test_common.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_option.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_option.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec3.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_crd_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_crd_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/dihedral.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/dihedral.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./dyn_cast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./dyn_cast.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./distance_rmsd_test.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./distance_rmsd_test.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./correlate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./correlate.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./merge_pairwise_alignments.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./merge_pairwise_alignments.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec4.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec4.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_octree.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_octree.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./alignment_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./alignment_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/entity_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/entity_impl_fw.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./log_sink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./log_sink.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'modules/config/CMakeFiles/ost_config.dir/build'. -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./module_config.hh -[ 0%] Built target ost_db_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_path.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_path.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_factory.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_manager.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pqr_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_pqr_handler.hh +[ 0%] Built target ost_db_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./rule_based.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./rule_based.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_region.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_region.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./pair_subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./pair_subst_weight_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./superpose_frames.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./superpose_frames.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_set.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_set.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec4.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec4.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/entity_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/entity_impl.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./cross_correlate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./cross_correlate.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_factory.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./semiglobal_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./semiglobal_align.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./profile.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/fragment_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/fragment_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./module_config.hh -[ 0%] Built target ost_config -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./rule_based.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./rule_based.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/octree_isocont.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/octree_isocont.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./filter_clashes.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./filter_clashes.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_mae_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_mae_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat2_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat2_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./stdint.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./stdint.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./superpose_frames.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./superpose_frames.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_frequency_domain.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_frequency_domain.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pqr_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_pqr_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options_widget.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./sequence_identity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./sequence_identity.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_visitor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/cartoon_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/cartoon_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/fragment_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/fragment_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./density_slice.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./density_slice.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_set.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_set.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_column.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_column.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./minimal_compound_lib.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./minimal_compound_lib.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./dyn_cast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./dyn_cast.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./sequence_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./sequence_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./construct_cbeta.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./construct_cbeta.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_mmcif_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_mmcif_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat3_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat3_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./semiglobal_align.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./semiglobal_align.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./density_slice.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./density_slice.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./stdint_msc.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./stdint_msc.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/manipulator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/manipulator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./filter_clashes.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./filter_clashes.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/entity_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/entity_impl_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_half_frequency_domain.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_half_frequency_domain.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./clash_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./clash_score.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_region.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_region.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./sequence_similarity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./sequence_similarity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_column_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_column_iterator.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./compound_lib_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./compound_lib_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_mae_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_mae_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./sequence_identity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./sequence_identity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat2_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat2_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_win.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options_win.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/fragment_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/fragment_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./range.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./range.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./construct_cbeta.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./construct_cbeta.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./info_verbose_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./info_verbose_visitor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_ast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_ast.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./stdint.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./stdint.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/custom_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/custom_renderer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./dft.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./dft.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/tool_options_win.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool_options_win.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./trajectory_analysis.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./trajectory_analysis.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat4_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat4_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_column.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_column.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./subst_weight_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./item_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./item_type.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/conop/src/./ring_finder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/conop/./ring_finder.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_ast_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_ast_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fft.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fft.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/cpk_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/cpk_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./invalid_sequence.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./invalid_sequence.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_mmcif_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_mmcif_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./sequence_similarity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./sequence_similarity.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/mouse_event.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/mouse_event.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./stdint_msc.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./stdint_msc.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./structure_analysis.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./structure_analysis.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./aligned_column_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./aligned_column_iterator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./clash_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./clash_score.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fft.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fft.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat3_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat3_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./item_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./item_type.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/fragment_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/fragment_impl_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_spatial_domain.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_spatial_domain.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./circular_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./circular_iterator.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./geom_info_conversion.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./geom_info_conversion.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./variance_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./variance_map.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./views_from_sequences.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./views_from_sequences.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./invalid_sequence.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./invalid_sequence.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./consistency_checks.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./consistency_checks.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/debug_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/debug_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./range.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./range.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./constants.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./constants.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pdb_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_pdb_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fftw_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fftw_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./units.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./units.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./trajectory_analysis.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./trajectory_analysis.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./subst_weight_matrix.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/tools/map_tool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/map_tool.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./item_type_cast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./item_type_cast.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./data/default_contact_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./default_contact_weight_matrix.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vecmat4_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vecmat4_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fftw_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fftw_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_ast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_ast.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./geom_info_conversion.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./geom_info_conversion.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./profile_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./profile_handle.hh [ 0%] Built target ost_conop_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./views_from_sequences.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./views_from_sequences.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./pdbize.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./pdbize.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_writer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/simple_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/simple_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./variance_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./variance_map.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./structure_analysis.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./structure_analysis.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./circular_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./circular_iterator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./message.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./message.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/align_properties_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/align_properties_painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./adjacency_bitmap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./adjacency_bitmap.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fill.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fill.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./data/default_pair_subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./default_pair_subst_weight_matrix.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_ast_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_ast_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_algorithm.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/base/src/./profile_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/./profile_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/residue_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/residue_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite2.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_sdf_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_sdf_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/base_row.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./platform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./platform.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./consistency_checks.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./consistency_checks.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/sline_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/sline_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./units.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./units.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./hmm_pseudo_counts.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./hmm_pseudo_counts.hh -[ 0%] Built target ost_info_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_visitor_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_visitor_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./contact_overlap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./contact_overlap.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite3.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./filter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./filter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/sdf_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/sdf_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./data/default_contact_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./default_contact_weight_matrix.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/info/src/./item_type_cast.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/info/./item_type_cast.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/base_row.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/residue_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/residue_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./constants.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./constants.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_pdb_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_pdb_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./string_ref.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./string_ref.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./filter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./filter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/image_state_visitor_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/image_state_visitor_fw.hh +[ 0%] Built target ost_seq_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./pdbize.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./pdbize.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/background_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/background_painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./domain_find.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./domain_find.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/trace_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./hmm_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./hmm_score.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./data/default_pair_subst_weight_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./default_pair_subst_weight_matrix.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_writer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./pod_vector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./pod_vector.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/map_octree.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/map_octree.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/index.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/index.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./message.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./message.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite_op.hh -[ 0%] Built target ost_seq_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/surface_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/surface_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite2.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite2.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fourier_filters.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fourier_filters.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/sdf_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/sdf_writer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/line_trace_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/line_trace_renderer.hh +[ 0%] Built target ost_info_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./adjacency_bitmap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./adjacency_bitmap.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/query_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/query_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/entity_io_sdf_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/entity_io_sdf_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./fixed_string.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./fixed_string.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/type_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/octree_isocont.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/octree_isocont.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/conservation_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/conservation_painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./platform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./platform.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./similarity_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./similarity_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/save_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/save_entity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite3.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite3.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./consistency_checks.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./consistency_checks.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./gaussian_gradient_magnitude.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./gaussian_gradient_magnitude.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite2_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite2_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/surface_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/surface_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/backbone_trace.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/backbone_trace.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./string_ref.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./string_ref.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/load_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/load_entity.hh -[ 0%] Built target ost_seq_alg_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/sdf_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/sdf_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/residue_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/residue_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/cartoon_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/cartoon_renderer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/image_state/value_holder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/image_state/value_holder.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./tri_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./tri_matrix.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./accessibility.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./accessibility.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite3_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite3_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_detail.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_detail.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/torsion_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/torsion_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./pod_vector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./pod_vector.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/surface_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/surface_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/secstr_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/secstr_row.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./gaussian.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./gaussian.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./sec_struct.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./sec_struct.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./contact_overlap.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./contact_overlap.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/sdf_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/sdf_writer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./algorithm.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./fixed_string.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./fixed_string.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./aligned_cuboid.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./aligned_cuboid.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_renderer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/torsion_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/torsion_impl_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/load_surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/load_surface.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./nonstandard.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./nonstandard.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_secstr_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_secstr_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./boost_filesystem_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./boost_filesystem_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/residue_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/residue_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./domain_find.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./domain_find.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/custom_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/custom_renderer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./gaussian_laplacian.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./gaussian_laplacian.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./tri_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./tri_matrix.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec_mat_predicates.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec_mat_predicates.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/secstr_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/secstr_row.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite2_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite2_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/save_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/save_entity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/surface_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/surface_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./similarity_matrix.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./similarity_matrix.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/cpk_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/cpk_renderer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./circle_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./circle_mask.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/surface_io_msms_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/surface_io_msms_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/trace_renderer_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_secstr_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_secstr_painter.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./highest_peak_search_3d.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./highest_peak_search_3d.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./composite3_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./composite3_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/load_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/load_entity.hh +[ 0%] Built target ost_base_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/surface_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/surface_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./accessibility.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./accessibility.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./composite_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./composite_mask.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./molck.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./molck.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/debug_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/debug_renderer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_selection_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_selection_painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./quat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./quat.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_str.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_str.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/base/src/./boost_filesystem_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/./boost_filesystem_helper.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/connect_renderer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/connect_renderer_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_algorithm.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./histogram.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./histogram.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./find_membrane.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./find_membrane.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_text_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_text_painter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/stereochemical_params_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/stereochemical_params_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./transform.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./aligned_cuboid.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./aligned_cuboid.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/surface_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/surface_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./sec_struct.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./sec_struct.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/torsion_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/torsion_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/simple_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/simple_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_algorithm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_algorithm.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./line_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./line_iterator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/load_surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/load_surface.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./vec_mat_predicates.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./vec_mat_predicates.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./nonstandard.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./nonstandard.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/seq_text_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/seq_text_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/impl/torsion_impl_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/impl/torsion_impl_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/sline_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/sline_renderer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_observer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_view.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/mapped_property.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/mapped_property.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./entity_to_density.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./entity_to_density.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/surface_io_msms_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/surface_io_msms_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./quat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./quat.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./local_sigma_threshold.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./local_sigma_threshold.hh -[ 0%] Built target ost_base_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./molck.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./molck.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_base.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_delegate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_delegate.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bond_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bond_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./point_cloud.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./point_cloud.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/load_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/load_map.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./mask_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./mask_image.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/trace_renderer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data_types.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data_types.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_renderer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_renderer_fw.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/pdb_str.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/pdb_str.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./transform.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./find_membrane.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./find_membrane.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/line_trace_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/line_trace_renderer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./mask_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./mask_image.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_model.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_model.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bond_table.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bond_table.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./point_cloud.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./point_cloud.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/mol/stereochemical_params_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/mol/stereochemical_params_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/alg/src/./entity_to_density.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/alg/./entity_to_density.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./atom_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./atom_view.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./negate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./negate.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/backbone_trace.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/backbone_trace.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_row.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/geom/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/geom/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/tabulated_trig.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/tabulated_trig.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./debug.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./debug.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/load_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/load_map.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bond_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bond_handle.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./normalizer_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./normalizer_factory.hh [ 0%] Built target ost_mol_alg_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./negate.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./negate.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_detail.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_detail.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_search_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_search_bar.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_df3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_df3_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./data.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./data.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_base.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_row.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/fast_spheres.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/fast_spheres.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./dllexport.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./dllexport.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bond_table.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bond_table.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_renderer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_renderer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/image_format.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/image_format.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./debug.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./debug.hh [ 0%] Built target ost_geom_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./normalizer_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./normalizer_factory.hh make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_table_view.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent_iterator.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src/CMakeFiles/ost_geom.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./normalizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./normalizer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/trace_renderer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/trace_renderer_base.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dx_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dx_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_search_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_search_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/render_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./dllexport.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./dllexport.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_view.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent_iterator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent_iterator.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_table_view.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_linear.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_linear.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/connect_renderer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/connect_renderer_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_spi_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_spi_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/tick_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/tick_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/mapped_property.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/mapped_property.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_log.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_log.hh make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_spi_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_spi_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_type.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/geom/src/CMakeFiles/ost_geom.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/line_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/line_render_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent_mask.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./normalizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./normalizer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_factory.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_situs_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_situs_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/entity_renderer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/entity_renderer_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/title_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/title_row.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_od.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_od.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_view.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_handler.hh [ 1%] Built target ost_geom -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chem_class.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chem_class.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./extent.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./extent.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/tabulated_trig.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/tabulated_trig.hh make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src/CMakeFiles/ost_base.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/custom_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/custom_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/alignment_view_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/alignment_view_object.hh make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_linear.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_linear.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/tick_painter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/tick_painter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_handle_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_handle_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./power_spectrum.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./power_spectrum.hh make -f modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_handler.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/pymod/CMakeFiles/_ost_geom.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_factory.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_factory.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/cpk_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/cpk_render_options.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests/CMakeFiles/ost_geom_tests.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chem_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chem_type.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/title_row.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/title_row.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_log.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_log.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/build -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chain_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chain_type.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/impl/fast_spheres.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/impl/fast_spheres.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_mrc_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_mrc_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/simple_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/simple_render_options.hh -make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/alignment_view_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/alignment_view_object.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'modules/geom/pymod/CMakeFiles/_ost_geom.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_group.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./norm_od.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./norm_od.hh +make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/base/src/CMakeFiles/ost_base.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Scanning dependencies of target ost_geom_tests -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/sline_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/sline_render_options.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dat_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dat_handler.hh -make -f modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./randomize.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./randomize.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 2%] Built target _ost_geom -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_handle_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_handle_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_source.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests/CMakeFiles/ost_geom_tests.dir/DependInfo.cmake --color= cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_view_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/base_view_object.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./power_spectrum.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./power_spectrum.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/line_trace_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/line_trace_render_options.hh -[ 3%] Built target ost_base +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chem_class.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chem_class.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dat_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dat_handler.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/render_options.hh +make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/build +[ 2%] Built target ost_base make -f modules/info/src/CMakeFiles/ost_info.dir/build.make modules/info/src/CMakeFiles/ost_info.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_ipl_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_ipl_handler.hh -make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./randomize.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./randomize.hh -[ 3%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o +make[4]: Nothing to be done for 'modules/geom/pymod/CMakeFiles/_ost_geom.dir/build'. +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./smooth_mask_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./smooth_mask_image.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_view_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_view_object.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/info/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/ost_info.dir/DependInfo.cmake --color= -[ 3%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_composite3.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./in_mem_coord_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./in_mem_coord_source.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_handle.hh -[ 3%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/cartoon_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/cartoon_render_options.hh -[ 4%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_composite2.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_view_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/sequence_viewer/sequence_view_object.hh -[ 4%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op2.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./smooth_mask_image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./smooth_mask_image.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_mat2.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_frame.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_frame.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_mat3.cc -[ 4%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op3.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_op2.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_op2.cc -[ 4%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./chem_type.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./chem_type.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_ipl_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_ipl_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/line_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/line_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_list.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_group.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_group.hh +[ 3%] Built target _ost_geom +make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/depend cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/main_thread_runner.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/main_thread_runner.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_jpk_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_jpk_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_mat4.cc -make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./editor_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./editor_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/trace_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/trace_render_options.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'modules/base/pymod/CMakeFiles/_ost_base.dir/build'. +Scanning dependencies of target ost_geom_tests make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_op3.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_op3.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat.hh +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake --color= +make -f modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/info/src/CMakeFiles/ost_info.dir/build.make modules/info/src/CMakeFiles/ost_info.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/custom_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/custom_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_source.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_state_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_state_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat_accumulator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat_accumulator.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/output_redirector.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/info/src/CMakeFiles/ost_info.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/output_redirector.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./editor_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./editor_type_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_nanoscope_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_nanoscope_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_list.hh -[ 4%] Built target _ost_base -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat_accumulator.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat_accumulator.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/color_op.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/build +[ 3%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'modules/base/pymod/CMakeFiles/_ost_base.dir/build'. +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_composite3.cc +[ 3%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o +[ 4%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/cpk_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/cpk_render_options.hh +[ 4%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/completer_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/completer_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_composite2.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./in_mem_coord_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./in_mem_coord_source.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_mat2.cc [ 5%] Built target ost_info -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./mol.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./mol.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_state.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat_min_max.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat_min_max.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_mat3.cc +[ 5%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o +[ 5%] Built target _ost_base +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_png_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_png_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_mat4.cc make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/depend +[ 5%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op2.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_op2.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_op2.cc make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/info/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod/CMakeFiles/_ost_info.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_png_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_png_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_state_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_state_fw.hh -[ 5%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op4.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_op4.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_op4.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./stat_min_max.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./stat_min_max.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_element_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/by_element_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/dir_model.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/dir_model.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./coord_frame.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./coord_frame.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/simple_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/simple_render_options.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./hmm_pseudo_counts.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./hmm_pseudo_counts.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./threshold.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./threshold.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_dm3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_dm3_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image.hh +[ 5%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op3.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_op3.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_op3.cc +[ 5%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op4.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_op4.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_op4.cc make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/gutter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/gutter.hh make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./threshold.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./threshold.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/sline_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/sline_render_options.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/info/pymod/CMakeFiles/_ost_info.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image_state.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transcendentals.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transcendentals.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_chain_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/by_chain_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/gutter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/gutter.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/map_io_tiff_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/map_io_tiff_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/seq/alg/src/./hmm_score.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/seq/alg/./hmm_score.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transcendentals.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transcendentals.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./editor_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./editor_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./inverted_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./inverted_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/path_completer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/path_completer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/tiff_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/tiff_util.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/line_trace_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/line_trace_render_options.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 6%] Built target _ost_info -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./image.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./image.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./editor_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./editor_type_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transform.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transform_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transform_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/tiff_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/tiff_util.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/path_completer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/path_completer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/uniform_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/uniform_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./inverted_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./inverted_mask.hh -[ 6%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_quat.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_observer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_quat.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_quat.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./alg_transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./alg_transform.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/jpk_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/jpk_util.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./map.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/gradient_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_observer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_observer_fw.hh +[ 6%] Built target ost_seq_alg_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/cartoon_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/cartoon_render_options.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_context_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_context_parser.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./alg_mirror.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./alg_mirror.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/sequence_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/sequence_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/img/jpk_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/img/jpk_util.hh +[ 6%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_quat.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./mol.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./mol.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_quat.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_quat.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transform_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transform_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/render_options/trace_render_options.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/render_options/trace_render_options.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_base_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_base_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/entity_view_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/entity_view_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_completer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_completer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_property_mapper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_property_mapper.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/fasta_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/fasta_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./alg_shift.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./alg_shift.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/sequence_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/sequence_io_handler.hh +[ 6%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_vec2.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./alg_transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./alg_transform.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_base.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_shell.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_view.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/basic_gradient_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/basic_gradient_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./discrete_shrink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./discrete_shrink.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/pir_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/pir_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/fasta_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/fasta_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./alg_mirror.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./alg_mirror.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_element_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/by_element_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_visitor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_level_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/gradient_level_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transformation_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transformation_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/pir_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/pir_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_shell_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/map_handle_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/map_handle_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_visitor_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_visitor_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./alg_shift.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./alg_shift.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_handle.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/promod_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/promod_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transformations.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transformations.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./render_pass.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./render_pass.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/by_chain_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/by_chain_color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./discrete_shrink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./discrete_shrink.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_shell_widget.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_visitor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_observer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/profile_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/profile_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./handle_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./handle_type_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/uniform_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/uniform_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_tokenizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_tokenizer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fractional_shift.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fractional_shift.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transformation_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transformation_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_observer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_observer_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/hhm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/hhm_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./bitmap_io.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./bitmap_io.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./ics_editor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./ics_editor.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_syntax_highlighter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_syntax_highlighter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/gradient_color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_property_mapper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_property_mapper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./transformations.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./transformations.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/text_logger.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./normalizer_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./normalizer_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./not_connected_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./not_connected_error.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/entity_view_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/entity_view_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/pssm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/pssm_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./collada_exporter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./collada_exporter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./polar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./polar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/text_logger.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/text_logger.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_view.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./fractional_shift.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./fractional_shift.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./normalizer_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./normalizer_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/basic_gradient_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/basic_gradient_color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_visitor.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/clustal_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/clustal_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./color.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./color.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./property_id.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./property_id.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./null_data.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./null_data.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./line_average.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./line_average.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./observable.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./observable.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/load.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/load.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./entity.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_interpreter_worker.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./rscrosscorr.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./rscrosscorr.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./paste_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./paste_impl.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/save.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/save.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./entity_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./entity_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_error.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./peak.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./peak.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/load.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/load.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/gradient_level_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/gradient_level_color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./polar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./polar.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./null_data.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./null_data.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./entity_visitor_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./entity_visitor_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_text_document_layout.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/python_shell_text_document_layout.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./binary_data_sink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./binary_data_sink.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gl_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gl_helper.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./phase.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./phase.hh -[ 6%] Built target ost_img_alg_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_state.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/seq/save.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/seq/save.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/color_ops/map_handle_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/color_ops/map_handle_color_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./observable.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./observable.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./handle_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./handle_type_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/shell_history.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/shell_history.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_manager.hh -[ 6%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_vec2.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./physical_units.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./physical_units.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./binary_data_sink.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./binary_data_sink.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./line_average.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./line_average.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/state_machine.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/state_machine.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./render_pass.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./render_pass.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./paste_impl.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./paste_impl.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./ics_editor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./ics_editor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_manager.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/state.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/alg/src/./rscrosscorr.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/alg/./rscrosscorr.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./bitmap_io.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./bitmap_io.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./binary_data_source.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./binary_data_source.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./pixel_sampling.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./pixel_sampling.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./peak.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./peak.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./not_connected_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./not_connected_error.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/transition.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/transition.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/state.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_prop.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./point_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./point_list.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/transition_guard.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/transition_guard.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./property_id.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./property_id.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./collada_exporter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./collada_exporter.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./phase.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./phase.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./container_serialization.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./container_serialization.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/transition.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/transition.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node_visitor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./point.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./point.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query.hh +[ 6%] Built target ost_img_alg_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./physical_units.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./physical_units.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./color.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./color.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/button_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/button_bar.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_error.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_error.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./swap_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./swap_util.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/python_shell/transition_guard.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/python_shell/transition_guard.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_view.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object_base.hh +[ 6%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_vec3.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./entity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./pixel_sampling.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./pixel_sampling.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_state.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_state.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/drop_box.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/drop_box.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_utils.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_utils.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./polygon_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./polygon_mask.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/button_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/button_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./sec_structure.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./sec_structure.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./entity_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./entity_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./io_exception.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_exception.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./progress.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./progress.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/drop_box.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/drop_box.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./spatial_organizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./spatial_organizer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_prim.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_prim.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./convert.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./convert.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./point_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./point_list.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/panel_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/panel_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./size.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./size.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./symmetry_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./symmetry_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gl_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gl_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./convert.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./convert.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./point.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./point.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/panel_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/panel_manager.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./converting_streams.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./converting_streams.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_test_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_test_object.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./spherical_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./spherical_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_prop.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./polygon_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./polygon_mask.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/bottom_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/bottom_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_builder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_builder.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./glwin_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./glwin_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./formatted_line.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./formatted_line.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./util.cc /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./util.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/button_box.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/button_box.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./builder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./builder.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./input.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./input.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/chemdict_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./chemdict_parser.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./util.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./prim_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./prim_list.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/event_button.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/event_button.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_handle.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./scene.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./scene.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./value_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./value_util.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./progress.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./progress.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./residue_view.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./residue_view.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/star_parser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./star_parser.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_prop.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/event_button.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/event_button.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./size.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./size.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./sec_structure.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./sec_structure.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/panel_widget_container.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/panel_widget_container.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./vecmat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./vecmat.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./selection.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./selection.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./torsion_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./torsion_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./spherical_mask.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./spherical_mask.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_node_visitor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_node_visitor.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/mmcif_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./mmcif_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./spatial_organizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./spatial_organizer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/panel_bar_widget_holder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/panel_bar_widget_holder.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_info_convert.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_info_convert.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./transfer_connectivity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./transfer_connectivity.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./surface.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./util.cc /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./util.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/mmcif_info.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./mmcif_info.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object_base.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/side_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/side_bar.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_view_wrapper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_view_wrapper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./util.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_builder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_builder.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/splitter_panel_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/splitter_panel_bar.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./texture.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./texture.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_object_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_object_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/io_profile.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./io_profile.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./value_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./value_util.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/panels/tabbed_panel_bar.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/panels/tabbed_panel_bar.hh -[ 6%] Built target ost_img_headers -make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./builder.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./builder.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_prim.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_prim.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/dcd_io.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./dcd_io.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./vertex_array.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./vertex_array.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_type_fw.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./vecmat.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./vecmat.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_handle.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/context_menu.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/context_menu.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./symmetry_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./symmetry_node.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_crd_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_crd_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./vertex_array_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./vertex_array_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./surface_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./surface_prop.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/current_selection_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/current_selection_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/img/base/src/./mask_info_convert.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/img/./mask_info_convert.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gfx_test_object.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gfx_test_object.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_pqr_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_pqr_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./torsion_handle.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./torsion_handle.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/custom_part_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/custom_part_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./glwin_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./glwin_base.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_mae_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_mae_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./transfer_connectivity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./transfer_connectivity.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/entity_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./input.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./input.hh +[ 6%] Built target ost_img_headers +make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_mmcif_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_mmcif_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_part_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/entity_part_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./query_view_wrapper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./query_view_wrapper.hh +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/src/CMakeFiles/ost_img.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./prim_list.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./prim_list.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/gfx_scene_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/gfx_scene_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/current_selection_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/current_selection_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./scene.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./scene.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/label_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/label_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_type_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_type_fw.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./scene_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./scene_observer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./xcs_editor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./xcs_editor.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_mae_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_mae_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/custom_part_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/custom_part_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./selection.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./selection.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/root_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/root_node.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/img/base/src/CMakeFiles/ost_img.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bounding_box.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bounding_box.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gl_include.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gl_include.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_mmcif_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_mmcif_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./glext_include.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./glext_include.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/entity_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_pdb_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_pdb_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./view_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./view_op.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./surface.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/render_mode_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/render_mode_node.hh [ 10%] Built target ost_img make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./transform.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./texture.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./texture.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./xcs_editor.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./xcs_editor.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/render_modes_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/render_modes_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_writer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./vertex_array.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./vertex_array.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/entity_part_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/entity_part_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./render_mode.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./render_mode.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./bounding_box.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./bounding_box.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_sdf_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_sdf_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./vertex_array_helper.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./vertex_array_helper.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_win.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./transform.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./transform.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./scene_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./scene_observer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/sdf_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sdf_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win_model.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_win_model.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/mol/base/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/mol/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./material.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./material.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/gfx_scene_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/gfx_scene_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gradient.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gradient.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_pdb_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_pdb_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gl_include.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gl_include.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/label_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/label_node.hh make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build -[ 10%] Built target ost_mol_headers -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gradient_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gradient_manager.hh -make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_writer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/sdf_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sdf_writer.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/message_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/message_widget.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/message_box_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/message_box_widget.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./glext_include.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./glext_include.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/save_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./save_entity.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./render_mode.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./render_mode.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/log_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/log_reader.hh +[ 10%] Built target ost_mol_headers +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/load_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_entity.hh +[ 13%] Built target ost_img_alg +make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/depend +make -f modules/img/base/tests/CMakeFiles/ost_img_tests.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/pymod/CMakeFiles/_ost_img.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/root_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/root_node.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./module_config.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/render_mode_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/render_mode_node.hh -[ 13%] Built target ost_img_alg -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/entity_io_sdf_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./entity_io_sdf_handler.hh -make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/render_modes_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/render_modes_node.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./material.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./material.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/argand.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/argand.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/surface_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./surface_io_handler.hh +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests/CMakeFiles/ost_img_tests.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gradient.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gradient.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/load_surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_surface.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./primitives.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./primitives.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/img/base/pymod/CMakeFiles/_ost_img.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/sdf_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sdf_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_node.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_node.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./povray_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./povray_fw.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_win.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/surface_io_msms_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./surface_io_msms_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gradient_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gradient_manager.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer_panel.hh [ 15%] Built target _ost_img -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/sdf_writer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sdf_writer.hh -make -f modules/img/base/tests/CMakeFiles/ost_img_tests.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win_model.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_win_model.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests/CMakeFiles/ost_img_tests.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./povray.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./povray.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/message_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/message_widget.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/save_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./save_entity.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./exporter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./exporter.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/message_box_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/message_box_widget.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'modules/mol/base/src/CMakeFiles/ost_mol.dir/build'. -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/load_entity.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_entity.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/messages/log_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/messages/log_reader.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./exporter_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./exporter_fw.hh -[ 21%] Built target ost_mol make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/argand.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/argand.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/surface_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./surface_io_handler.hh -Scanning dependencies of target ost_img_tests +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_str.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_str.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./module_config.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer_panel_base.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./primitives.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./primitives.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/stereochemical_params_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./stereochemical_params_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/draw_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/draw_overlay.hh +Scanning dependencies of target ost_img_tests make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/img/base/tests/CMakeFiles/ost_img_tests.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gost_exporter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gost_exporter.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/load_surface.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_surface.hh -[ 21%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_data.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer_panel.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./color_ops/map_handle_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_handle_color_op.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_data.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_data.cc -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/surface_io_msms_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./surface_io_msms_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./map_iso.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_iso.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer_panel_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/data_viewer_panel_base.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./map_slab.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_slab.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/pdb_str.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pdb_str.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/draw_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/draw_overlay.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./map_iso_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_iso_prop.hh -Scanning dependencies of target ost_img_alg_tests -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./mol/stereochemical_params_reader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./stereochemical_params_reader.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./povray_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./povray_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/drawing_functions.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/drawing_functions.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/sequence_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./sequence_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/fft_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/fft_panel.hh -[ 21%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_clear.cc -[ 21%] Built target ost_gfx_headers -make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/depend +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./povray.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./povray.hh +[ 15%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_data.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_data.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_data.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/fasta_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./fasta_io_handler.hh -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/info_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/info_panel.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/fft_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/fft_panel.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./exporter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./exporter.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/pir_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pir_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/info_panel.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/info_panel.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./exporter_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./exporter_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/img2qt.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/img2qt.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/promod_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./promod_io_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/mask_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/mask_overlay.hh -Scanning dependencies of target ost_mol_tests +Scanning dependencies of target ost_img_alg_tests make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/build +make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./gost_exporter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./gost_exporter.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/mask_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/mask_overlay.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/profile_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./profile_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./color_ops/map_handle_color_op.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_handle_color_op.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/null_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/null_overlay.hh -[ 21%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_atom_groups.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/hhm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./hhm_io_handler.hh +[ 15%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_clear.cc +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./map_iso.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_iso.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_base.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/pssm_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./pssm_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./map_slab.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_slab.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/clustal_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./clustal_io_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gfx/src/./map_iso_prop.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/./map_iso_prop.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_base_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_base_fw.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/load.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_manager.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./seq/save.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./save.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager_fw.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_manager_fw.hh +[ 15%] Built target ost_gfx_headers cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/load_map.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./load_map.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager_gui.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_manager_gui.hh +[ 15%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_extent.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_extent.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_extent.cc cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_df3_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_df3_handler.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/image_format.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./image_format.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/overlay_manager_observer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/overlay_manager_observer.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_dx_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_dx_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/image_format.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./image_format.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/pointlist_overlay.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/pointlist_overlay.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_spi_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_spi_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_dx_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_dx_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/pointlist_overlay_base.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/pointlist_overlay_base.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_spi_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_spi_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/strategies.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/strategies.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_situs_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_situs_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_handler.hh @@ -11393,8 +11414,8 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/data_viewer/viewer_normalizer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/data_viewer/viewer_normalizer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_dat_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_dat_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./file_browser.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./file_browser.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./file_type_dialog.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./file_type_dialog.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_ipl_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_ipl_handler.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./file_type_dialog.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./file_type_dialog.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_jpk_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_jpk_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./file_viewer.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./file_viewer.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_nanoscope_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_nanoscope_handler.hh @@ -11407,141 +11428,194 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/map_io_tiff_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./map_io_tiff_handler.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./admin.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./admin.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/tiff_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./tiff_util.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./module_config.hh cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/io/src/./img/jpk_util.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/io/./jpk_util.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./main.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./main.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./module_config.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./module_config.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./main.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./main.hh +[ 15%] Built target ost_io_headers +make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/depend cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./main_area.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./main_area.hh -[ 21%] Built target ost_io_headers -make -f modules/seq/base/src/CMakeFiles/ost_seq.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake --color= cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./perspective.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./perspective.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./scene_selection.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./scene_selection.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./main_window.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./main_window.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/build +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./dock_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./dock_widget.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./dock_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./dock_widget.hh +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'modules/mol/base/src/CMakeFiles/ost_mol.dir/build'. +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./thin_splitter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./thin_splitter.hh +[ 21%] Built target ost_mol +make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget_geom_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget_geom_handler.hh +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build'. +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget_pool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget_pool.hh +[ 21%] Built target _ost_img_alg +make -f modules/base/tests/CMakeFiles/ost_base_tests.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests/CMakeFiles/ost_base_tests.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget_registry.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget_registry.hh +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget_state_saver.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget_state_saver.hh +Scanning dependencies of target ost_base_tests +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/base/tests/CMakeFiles/ost_base_tests.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./file_loader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./file_loader.hh +[ 21%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o -c /build/openstructure-2.2.0/modules/base/tests/test_generic_property.cc +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 21%] Built target ost_gui_headers +make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/DependInfo.cmake --color= +Scanning dependencies of target ost_mol_tests +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 21%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_atom_groups.cc +[ 21%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_vec4.cc +[ 22%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_image.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_image.cc +[ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_transform.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_transform.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_transform.cc +[ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/tests.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/tests.cc +[ 24%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o -c /build/openstructure-2.2.0/modules/base/tests/test_string_ref.cc +[ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_image_state.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_image_state.cc +[ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_image_state_visitor.cc +[ 24%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o -c /build/openstructure-2.2.0/modules/base/tests/test_pod_vector.cc +[ 25%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_conj.cc +[ 25%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_index.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_index.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_index.cc +[ 25%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_point.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_point.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_point.cc +[ 25%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_convolute.cc +[ 25%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_chain.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_chain.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_chain.cc +[ 25%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_sampling.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_sampling.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_sampling.cc +[ 25%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_domains.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_domains.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_domains.cc +[ 25%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_conn.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_conn.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_conn.cc +[ 25%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/tests.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/base/tests/tests.cc +[ 25%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_coord_group.cc +[ 25%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_size.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_size.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_size.cc +[ 25%] Linking CXX executable ../../../tests/ost_geom_tests +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_geom_tests.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o CMakeFiles/ost_geom_tests.dir/test_op2.cc.o CMakeFiles/ost_geom_tests.dir/test_op3.cc.o CMakeFiles/ost_geom_tests.dir/test_op4.cc.o CMakeFiles/ost_geom_tests.dir/test_quat.cc.o CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o CMakeFiles/ost_geom_tests.dir/test_transform.cc.o CMakeFiles/ost_geom_tests.dir/tests.cc.o -o ../../../tests/ost_geom_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so +[ 25%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_builder.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_builder.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_builder.cc +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 25%] Built target ost_geom_tests +make -f modules/seq/base/src/CMakeFiles/ost_seq.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src/CMakeFiles/ost_seq.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./scene_selection.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./scene_selection.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/seq/base/src/CMakeFiles/ost_seq.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/seq/base/src/CMakeFiles/ost_seq.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./main_window.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./main_window.hh -[ 22%] Built target ost_seq +[ 26%] Built target ost_seq make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./dock_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./dock_widget.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./dock_widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./dock_widget.hh -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./thin_splitter.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./thin_splitter.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget_geom_handler.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget_geom_handler.hh -[ 24%] Built target _ost_mol +[ 28%] Built target _ost_mol make -f modules/db/src/CMakeFiles/ost_db.dir/build.make modules/db/src/CMakeFiles/ost_db.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/src/CMakeFiles/ost_db.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget_pool.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget_pool.hh make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/db/src/CMakeFiles/ost_db.dir/build.make modules/db/src/CMakeFiles/ost_db.dir/build -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget_registry.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget_registry.hh make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/db/src/CMakeFiles/ost_db.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./widget_state_saver.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./widget_state_saver.hh -[ 25%] Built target ost_db -make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/modules/gui/src/./file_loader.hh /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/./file_loader.hh -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build'. -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 25%] Built target ost_gui_headers -make -f modules/base/tests/CMakeFiles/ost_base_tests.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests/CMakeFiles/ost_base_tests.dir/DependInfo.cmake --color= -[ 25%] Built target _ost_img_alg +[ 29%] Built target ost_db make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src/CMakeFiles/ost_bindings.dir/DependInfo.cmake --color= -Scanning dependencies of target ost_base_tests -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/base/tests/CMakeFiles/ost_base_tests.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/bindings/src/CMakeFiles/ost_bindings.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 25%] Built target ost_bindings -[ 25%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o +[ 29%] Built target ost_bindings +make -f modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/DependInfo.cmake --color= +Scanning dependencies of target ost_geom_tests_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 29%] running checks for module geom +cd /build/openstructure-2.2.0/modules/geom/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_geom_tests +[ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_discrete_shrink.cc +[ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_fft.cc +Running 25 test cases... + +*** No errors detected +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 29%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_value_holder.cc +[ 29%] Built target ost_geom_tests_run make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/depend -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o -c /build/openstructure-2.2.0/modules/base/tests/test_generic_property.cc make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/DependInfo.cmake --color= +[ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_fill.cc Scanning dependencies of target ost_seq_tests make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 25%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o +[ 29%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o -c /build/openstructure-2.2.0/modules/seq/base/tests/test_sequence.cc -[ 25%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_extent.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_extent.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_extent.cc -[ 25%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_vec3.cc -[ 25%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_vec4.cc -[ 26%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_transform.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/test_transform.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/test_transform.cc -[ 26%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/tests.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -o CMakeFiles/ost_geom_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/geom/tests/tests.cc -[ 27%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_image.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_image.cc -[ 27%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_chain.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_chain.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_chain.cc -[ 28%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_conj.cc -[ 28%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_image_state.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_image_state.cc -[ 28%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_conn.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_conn.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_conn.cc -[ 29%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o -c /build/openstructure-2.2.0/modules/base/tests/test_string_ref.cc -[ 29%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_image_state_visitor.cc -[ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_coord_group.cc -[ 29%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_index.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_index.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_index.cc -[ 29%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_point.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_point.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_point.cc -[ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_builder.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_builder.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_builder.cc -[ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_delete.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_delete.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_delete.cc -[ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_convolute.cc -[ 29%] Linking CXX executable ../../../tests/ost_geom_tests -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_geom_tests.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o CMakeFiles/ost_geom_tests.dir/test_op2.cc.o CMakeFiles/ost_geom_tests.dir/test_op3.cc.o CMakeFiles/ost_geom_tests.dir/test_op4.cc.o CMakeFiles/ost_geom_tests.dir/test_quat.cc.o CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o CMakeFiles/ost_geom_tests.dir/test_transform.cc.o CMakeFiles/ost_geom_tests.dir/tests.cc.o -o ../../../tests/ost_geom_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so -[ 30%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_entity.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_entity.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_entity.cc +[ 29%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/tests.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/tests.cc +[ 29%] Linking CXX executable ../../../tests/ost_base_tests +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_base_tests.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o CMakeFiles/ost_base_tests.dir/tests.cc.o -o ../../../tests/ost_base_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 +[ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_filter.cc make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 30%] Built target ost_geom_tests +[ 29%] Built target ost_base_tests make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/DependInfo.cmake --color= +[ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_histogram.cc make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 32%] Built target ost_seq_alg +[ 31%] Built target ost_seq_alg make -f modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build.make modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/DependInfo.cmake --color= @@ -11550,7 +11624,7 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 32%] Built target _ost_seq +[ 31%] Built target _ost_seq make -f modules/conop/src/CMakeFiles/ost_conop.dir/build.make modules/conop/src/CMakeFiles/ost_conop.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop.dir/DependInfo.cmake --color= @@ -11559,7 +11633,7 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/conop/src/CMakeFiles/ost_conop.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 33%] Built target ost_conop +[ 32%] Built target ost_conop make -f modules/db/pymod/CMakeFiles/_ost_db.dir/build.make modules/db/pymod/CMakeFiles/_ost_db.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/pymod/CMakeFiles/_ost_db.dir/DependInfo.cmake --color= @@ -11568,7 +11642,7 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/db/pymod/CMakeFiles/_ost_db.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 34%] Built target _ost_db +[ 33%] Built target _ost_db make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/DependInfo.cmake --color= @@ -11577,9 +11651,23 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 34%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_sampling.cc.o -[ 36%] Built target ost_mol_alg -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_sampling.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_sampling.cc +[ 35%] Built target ost_mol_alg +make -f modules/base/tests/CMakeFiles/ost_base_tests_run.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests/CMakeFiles/ost_base_tests_run.dir/DependInfo.cmake --color= +Scanning dependencies of target ost_base_tests_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/base/tests/CMakeFiles/ost_base_tests_run.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests_run.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 35%] running checks for module base +cd /build/openstructure-2.2.0/modules/base/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_base_tests +[ 35%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_mirror.cc +Running 5 test cases... + +*** No errors detected +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 35%] Built target ost_base_tests_run make -f modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build.make modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/DependInfo.cmake --color= @@ -11588,7 +11676,7 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 36%] Built target _ost_bindings +[ 35%] Built target _ost_bindings make -f modules/conop/tests/CMakeFiles/ost_conop_tests.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests/CMakeFiles/ost_conop_tests.dir/DependInfo.cmake --color= @@ -11596,32 +11684,29 @@ make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/conop/tests/CMakeFiles/ost_conop_tests.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 37%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o +[ 36%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o -c /build/openstructure-2.2.0/modules/conop/tests/test_amino_acids.cc -[ 37%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o -c /build/openstructure-2.2.0/modules/base/tests/test_pod_vector.cc -[ 37%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/tests.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_base_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/base/tests/tests.cc -[ 37%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_domains.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_domains.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_domains.cc -[ 37%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_size.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_size.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_size.cc -make -f modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/DependInfo.cmake --color= -Scanning dependencies of target ost_geom_tests_run +[ 36%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o -c /build/openstructure-2.2.0/modules/conop/tests/test_heuristic_conop.cc +[ 36%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_delete.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_delete.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_delete.cc +[ 36%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/tests.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_conop_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/conop/tests/tests.cc +[ 36%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o -c /build/openstructure-2.2.0/modules/conop/tests/test_rule_based_conop.cc +[ 36%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_negate.cc +[ 36%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_power_spectrum.cc +[ 36%] Linking CXX executable ../../../../tests/ost_img_tests +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img_tests.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_img_tests.dir/test_data.cc.o CMakeFiles/ost_img_tests.dir/test_extent.cc.o CMakeFiles/ost_img_tests.dir/test_image.cc.o CMakeFiles/ost_img_tests.dir/test_image_state.cc.o CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o CMakeFiles/ost_img_tests.dir/test_index.cc.o CMakeFiles/ost_img_tests.dir/test_point.cc.o CMakeFiles/ost_img_tests.dir/test_sampling.cc.o CMakeFiles/ost_img_tests.dir/test_domains.cc.o CMakeFiles/ost_img_tests.dir/test_size.cc.o CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o CMakeFiles/ost_img_tests.dir/tests.cc.o -o ../../../../tests/ost_img_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so +[ 37%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_entity.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_entity.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_entity.cc +[ 37%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_ics.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_ics.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_ics.cc make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 37%] running checks for module geom -cd /build/openstructure-2.2.0/modules/geom/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_geom_tests -[ 37%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/test_value_holder.cc -Running 25 test cases... - -*** No errors detected -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 37%] Built target ost_geom_tests_run +[ 37%] Built target ost_img_tests make -f modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build.make modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/DependInfo.cmake --color= @@ -11632,12 +11717,12 @@ make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 37%] Built target _ost_seq_alg make -f modules/gfx/src/CMakeFiles/ost_gfx.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx.dir/depend +[ 37%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/helper.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_conop_tests.dir/helper.cc.o -c /build/openstructure-2.2.0/modules/conop/tests/helper.cc make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/src/CMakeFiles/ost_gfx.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/gfx/src/CMakeFiles/ost_gfx.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx.dir/build -[ 37%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_ics.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_ics.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_ics.cc make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/gfx/src/CMakeFiles/ost_gfx.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' @@ -11656,10 +11741,12 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src/CMakeFiles/ost_io.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/build +[ 46%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_shift.cc make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/io/src/CMakeFiles/ost_io.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 49%] Built target ost_io +[ 50%] Built target ost_io make -f modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build.make modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/DependInfo.cmake --color= @@ -11668,7 +11755,7 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 51%] Built target _ost_mol_alg +[ 52%] Built target _ost_mol_alg make -f modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/build.make modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/DependInfo.cmake --color= @@ -11676,47 +11763,57 @@ make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/build.make modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 51%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/tests.cc.o +[ 52%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/tests.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_gfx_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/gfx/tests/tests.cc -[ 51%] Linking CXX executable ../../../tests/ost_base_tests -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_base_tests.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o CMakeFiles/ost_base_tests.dir/tests.cc.o -o ../../../tests/ost_base_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 -[ 51%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/tests.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/img/base/tests/tests.cc +[ 52%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_stat.cc +[ 53%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/tests/test_gfx_node.cc +[ 53%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_query.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_query.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_query.cc +[ 53%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_transform.cc +[ 53%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_normalizer.cc +[ 53%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/tests.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/tests.cc +[ 53%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_surface.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_surface.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_surface.cc +[ 53%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_residue.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_residue.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_residue.cc +[ 53%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_view.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_view.cc +make -f modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/DependInfo.cmake --color= +Scanning dependencies of target ost_img_tests_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 51%] Built target ost_base_tests +make -f modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 54%] running checks for module img +cd /build/openstructure-2.2.0/modules/img/base/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_img_tests +[ 54%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o -c /build/openstructure-2.2.0/modules/seq/base/tests/test_aligned_column.cc +Running 44 test cases... + +*** No errors detected +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 54%] Built target ost_img_tests_run make -f modules/io/tests/CMakeFiles/ost_io_tests.dir/build.make modules/io/tests/CMakeFiles/ost_io_tests.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests/CMakeFiles/ost_io_tests.dir/DependInfo.cmake --color= -[ 51%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_discrete_shrink.cc Scanning dependencies of target ost_io_tests make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/io/tests/CMakeFiles/ost_io_tests.dir/build.make modules/io/tests/CMakeFiles/ost_io_tests.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 51%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o -c /build/openstructure-2.2.0/modules/seq/base/tests/test_aligned_column.cc -[ 52%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_clustal.cc.o +[ 55%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_clustal.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_clustal.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_clustal.cc -[ 52%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_io_pdb.cc -[ 52%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_query.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_query.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_query.cc -[ 53%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o -c /build/openstructure-2.2.0/modules/gfx/tests/test_gfx_node.cc -[ 53%] Building CXX 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/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_io_crd.cc -[ 53%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_io_dcd.cc -[ 53%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB 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../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 53%] Built target ost_img_tests +[ 55%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 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-isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_view_op.cc +[ 55%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/tests.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/tests.cc make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/DependInfo.cmake --color= @@ -11724,56 +11821,21 @@ make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 53%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o +[ 55%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/tests/test_superposition.cc -[ 53%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_io_sequence_profile.cc -[ 53%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_fft.cc -[ 53%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_residue.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_residue.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_residue.cc -[ 53%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_tests.dir/test_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_view.cc -[ 53%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/tests.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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/build/openstructure-2.2.0/modules/io/tests/test_pir.cc -[ 53%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o -c /build/openstructure-2.2.0/modules/conop/tests/test_rule_based_conop.cc -[ 53%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_color.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_gfx_tests.dir/test_color.cc.o -c /build/openstructure-2.2.0/modules/gfx/tests/test_color.cc -[ 53%] Building CXX 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/usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o -c /build/openstructure-2.2.0/modules/mol/alg/tests/test_consistency_checks.cc +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 55%] Built target ost_img_alg_tests make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu 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/usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_io_crd.cc +[ 56%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o -c /build/openstructure-2.2.0/modules/seq/base/tests/test_aligned_region.cc +[ 56%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_io_dcd.cc +[ 56%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_io_sdf.cc +[ 56%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_io_sequence_profile.cc +[ 57%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o -c /build/openstructure-2.2.0/modules/seq/base/tests/test_alignment.cc +[ 57%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_pir.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_pir.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_pir.cc +[ 57%] Linking CXX executable ../../../tests/ost_gfx_tests cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_gfx_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_gfx_tests.dir/tests.cc.o CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o CMakeFiles/ost_gfx_tests.dir/test_color.cc.o CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o -o ../../../tests/ost_gfx_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../stage/lib/libost_gfx.so.2.2.0 ../../../stage/lib/libost_io.so.2.2.0 /usr/lib/x86_64-linux-gnu/libOpenGL.so /usr/lib/x86_64-linux-gnu/libGLX.so /usr/lib/x86_64-linux-gnu/libGLU.so ../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_img_alg.so.2.2.0 ../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so +[ 57%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_iomanager.cc make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 56%] Built target ost_gfx_tests +[ 57%] Built target ost_gfx_tests make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/DependInfo.cmake --color= @@ -11806,20 +11880,18 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 58%] Built target _ost_gfx +[ 60%] Built target _ost_gfx make -f modules/gui/src/CMakeFiles/ost_gui.dir/build.make modules/gui/src/CMakeFiles/ost_gui.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/ost_gui.dir/DependInfo.cmake --color= -[ 58%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_histogram.cc make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/gui/src/CMakeFiles/ost_gui.dir/build.make modules/gui/src/CMakeFiles/ost_gui.dir/build -[ 58%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_mirror.cc +[ 60%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/tests.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/io/tests/tests.cc make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/gui/src/CMakeFiles/ost_gui.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 91%] Built target ost_gui +[ 92%] Built target ost_gui make -f modules/io/pymod/CMakeFiles/_ost_io.dir/build.make modules/io/pymod/CMakeFiles/_ost_io.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod/CMakeFiles/_ost_io.dir/DependInfo.cmake --color= @@ -11828,21 +11900,7 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/io/pymod/CMakeFiles/_ost_io.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 91%] Built target _ost_io -make -f modules/base/tests/CMakeFiles/ost_base_tests_run.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests/CMakeFiles/ost_base_tests_run.dir/DependInfo.cmake --color= -Scanning dependencies of target ost_base_tests_run -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/base/tests/CMakeFiles/ost_base_tests_run.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 91%] running checks for module base -cd /build/openstructure-2.2.0/modules/base/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_base_tests -Running 5 test cases... - -*** No errors detected -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 91%] Built target ost_base_tests_run +[ 92%] Built target _ost_io make -f modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/build.make modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/DependInfo.cmake --color= @@ -11850,38 +11908,79 @@ make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/build.make modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 91%] running checks for module gfx +[ 92%] running checks for module gfx cd /build/openstructure-2.2.0/modules/gfx/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_gfx_tests +[ 92%] Linking CXX executable ../../../../tests/ost_mol_alg_tests +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol_alg_tests.dir/link.txt --verbose=1 Running 13 test cases... *** No errors detected -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 91%] Built target ost_gfx_tests_run -make -f modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/depend +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o -o ../../../../tests/ost_mol_alg_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../../stage/lib/libost_io.so.2.2.0 ../../../../stage/lib/libost_mol_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_conop.so.2.2.0 ../../../../stage/lib/libost_db.so.2.2.0 ../../../../stage/lib/libost_seq.so.2.2.0 ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 92%] Built target ost_gfx_tests_run +make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/DependInfo.cmake --color= -Scanning dependencies of target ost_img_tests_run +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/DependInfo.cmake --color= +Scanning dependencies of target ost_img_alg_tests_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build +make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build +[ 92%] Linking CXX executable ../../../tests/ost_conop_tests +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_conop_tests.dir/link.txt --verbose=1 make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 92%] running checks for module img -cd /build/openstructure-2.2.0/modules/img/base/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_img_tests -Running 44 test cases... +[ 92%] running checks for module img_alg +cd /build/openstructure-2.2.0/modules/img/alg/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_img_alg_tests +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o CMakeFiles/ost_conop_tests.dir/tests.cc.o CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o CMakeFiles/ost_conop_tests.dir/helper.cc.o -o ../../../tests/ost_conop_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so +Running 25 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 92%] Built target ost_img_tests_run +[ 92%] Built target ost_img_alg_tests_run make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.dir/depend +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/_ost_gui.dir/DependInfo.cmake --color= +[ 92%] Built target ost_mol_alg_tests +make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/DependInfo.cmake --color= +Scanning dependencies of target ost_mol_alg_tests_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 92%] running checks for module mol_alg +cd /build/openstructure-2.2.0/modules/mol/alg/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_mol_alg_tests make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.dir/build -[ 92%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/gui/pymod/CMakeFiles/_ost_gui.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_negate.cc +[ 92%] Built target ost_conop_tests [ 94%] Built target _ost_gui +make -f modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/DependInfo.cmake --color= +[ 94%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_profile.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_tests.dir/test_profile.cc.o -c /build/openstructure-2.2.0/modules/seq/base/tests/test_profile.cc +Scanning dependencies of target ost_conop_tests_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 94%] running checks for module conop +cd /build/openstructure-2.2.0/modules/conop/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_conop_tests +Running 16 test cases... +unable to open database file +unable to open database file +unable to open database file +unable to open database file +unable to open database file +unable to open database file +unable to open database file +unable to open database file + +*** No errors detected +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 94%] Built target ost_conop_tests_run make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/ost_scripts.dir/DependInfo.cmake --color= @@ -11895,13 +11994,6 @@ cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -E copy_if_different /build/openstructure-2.2.0/scripts/dng_startup.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/dng_startup.py make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 94%] Built target ost_scripts -[ 94%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/tests/test_sequence_identity.cc -[ 94%] Linking CXX executable ../../../../tests/ost_mol_alg_tests -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol_alg_tests.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o -o ../../../../tests/ost_mol_alg_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../../stage/lib/libost_io.so.2.2.0 ../../../../stage/lib/libost_mol_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2.0 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_conop.so.2.2.0 ../../../../stage/lib/libost_db.so.2.2.0 ../../../../stage/lib/libost_seq.so.2.2.0 ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 94%] Built target ost_mol_alg_tests make -f modules/seq/alg/tests/CMakeFiles/test_weight_matrix.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_weight_matrix.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/test_weight_matrix.py_run.dir/DependInfo.cmake --color= @@ -11911,13 +12003,11 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 94%] running checks test_weight_matrix.py cd /build/openstructure-2.2.0/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/alg/tests/test_weight_matrix.py" -.. ----------------------------------------------------------------------- -Ran 2 tests in 0.000s +Running 4 test cases... -OK -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 94%] Built target test_weight_matrix.py_run +*** No errors detected +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 94%] Built target ost_mol_alg_tests_run make -f modules/base/tests/CMakeFiles/test_stutil.py_run.dir/build.make modules/base/tests/CMakeFiles/test_stutil.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests/CMakeFiles/test_stutil.py_run.dir/DependInfo.cmake --color= @@ -11927,9 +12017,11 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 94%] running checks test_stutil.py cd /build/openstructure-2.2.0/modules/base/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/base/tests/test_stutil.py" +[ 94%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_star_parser.cc ...... ---------------------------------------------------------------------- -Ran 6 tests in 0.001s +Ran 6 tests in 0.096s OK make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' @@ -11943,19 +12035,23 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 94%] running checks test_table.py cd /build/openstructure-2.2.0/modules/base/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/base/tests/test_table.py" +[ 94%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/tests/test_sequence_identity.cc +[ 94%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_mmcif_reader.cc [ 94%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/tests/tests.cc -[ 94%] Linking CXX executable ../../../../tests/ost_mol_tests +[ 95%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_mmcif_info.cc +[ 95%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_img.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_img.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_io_img.cc +[ 95%] Linking CXX executable ../../../../tests/ost_mol_tests cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o CMakeFiles/ost_mol_tests.dir/test_chain.cc.o CMakeFiles/ost_mol_tests.dir/test_conn.cc.o CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o CMakeFiles/ost_mol_tests.dir/test_builder.cc.o CMakeFiles/ost_mol_tests.dir/test_delete.cc.o CMakeFiles/ost_mol_tests.dir/test_entity.cc.o CMakeFiles/ost_mol_tests.dir/test_ics.cc.o CMakeFiles/ost_mol_tests.dir/test_query.cc.o CMakeFiles/ost_mol_tests.dir/test_surface.cc.o CMakeFiles/ost_mol_tests.dir/test_residue.cc.o CMakeFiles/ost_mol_tests.dir/test_view.cc.o CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o CMakeFiles/ost_mol_tests.dir/tests.cc.o -o ../../../../tests/ost_mol_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 -.......................[ 94%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_power_spectrum.cc -[ 95%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_shift.cc -[ 95%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_stat.cc -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 95%] Built target ost_mol_tests +[ 95%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o -c /build/openstructure-2.2.0/modules/io/tests/test_exceptions.cc +[ 95%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/tests.cc.o +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/seq/base/tests/tests.cc make -f modules/base/tests/CMakeFiles/test_log.py_run.dir/build.make modules/base/tests/CMakeFiles/test_log.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/tests/CMakeFiles/test_log.py_run.dir/DependInfo.cmake --color= @@ -11965,65 +12061,36 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 95%] running checks test_log.py cd /build/openstructure-2.2.0/modules/base/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/base/tests/test_log.py" +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' .... ---------------------------------------------------------------------- -Ran 4 tests in 0.001s +Ran 4 tests in 0.027s OK -..make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -.........[ 95%] Built target test_log.py_run +[ 95%] Built target ost_mol_tests make -f modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/DependInfo.cmake --color= -....Scanning dependencies of target test_naccess.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 95%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_profile.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_tests.dir/test_profile.cc.o -c /build/openstructure-2.2.0/modules/seq/base/tests/test_profile.cc -[ 95%] running checks test_naccess.py -cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_naccess.py" -/usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/enrichment-out.png'> - method() -ResourceWarning: Enable tracemalloc to get the object allocation traceback -.[ 95%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_transform.cc -Could not find NACCESS, could not test binding... -/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ost/table.py:2963: MatplotlibDeprecationWarning: The 'basex' parameter of __init__() has been renamed 'base' since Matplotlib 3.3; support for the old name will be dropped two minor releases later. - plt.xscale('log', basex=10) -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 95%] Built target test_naccess.py_run +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/DependInfo.cmake --color= +[ 95%] Built target test_log.py_run make -f modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/DependInfo.cmake --color= -[ 95%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/test_normalizer.cc +Scanning dependencies of target test_naccess.py_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Scanning dependencies of target test_clustalw.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/build +[ 95%] running checks test_naccess.py make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_naccess.py" [ 95%] running checks test_clustalw.py cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_clustalw.py" -[ 95%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/img/alg/tests/tests.cc -../usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/roc-out.png'> - method() -ResourceWarning: Enable tracemalloc to get the object allocation traceback -./usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/roc-same-val-out.png'> - method() -ResourceWarning: Enable tracemalloc to get the object allocation traceback -................./build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ost/table.py:2186: DeprecationWarning: scipy.isnan is deprecated and will be removed in SciPy 2.0.0, use numpy.isnan instead - if scipy.isnan(correl): -......................... ----------------------------------------------------------------------- -Ran 83 tests in 6.906s - -OK -[ 95%] Linking CXX executable ../../../../tests/ost_seq_alg_tests -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq_alg_tests.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -o ../../../../tests/ost_seq_alg_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../../stage/lib/libost_io.so.2.2.0 ../../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../../stage/lib/libost_conop.so.2.2.0 ../../../../stage/lib/libost_db.so.2.2.0 ../../../../stage/lib/libost_seq.so.2.2.0 ../../../../stage/lib/libost_mol.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so +Could not find NACCESS, could not test binding... make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 95%] Built target test_table.py_run +[ 95%] Built target test_naccess.py_run make -f modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/DependInfo.cmake --color= @@ -12033,54 +12100,53 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 96%] running checks test_blast.py cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_blast.py" -.....Could not find blast executable: ignoring unit tests -. +.. ---------------------------------------------------------------------- -Ran 7 tests in 4.438s +Ran 2 tests in 0.000s OK +Could not find blast executable: ignoring unit tests make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 96%] Built target test_blast.py_run +[ 96%] Built target test_weight_matrix.py_run make -f modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/depend -[ 96%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/tests.cc.o -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -o CMakeFiles/ost_seq_tests.dir/tests.cc.o -c /build/openstructure-2.2.0/modules/seq/base/tests/tests.cc +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/DependInfo.cmake --color= -[ 96%] Built target ost_seq_alg_tests +[ 96%] Built target test_blast.py_run make -f modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Scanning dependencies of target test_cadscore.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 96%] running checks test_cadscore.py Scanning dependencies of target test_hhblits.py_run +cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_cadscore.py" make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 96%] Built target test_clustalw.py_run make -f modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 96%] running checks test_hhblits.py +cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_hhblits.py" +.No HHblits installation found: skip unit tests +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 96%] Built target test_hhblits.py_run make -f modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/DependInfo.cmake --color= -[ 96%] running checks test_cadscore.py -cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_cadscore.py" -make -f modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/DependInfo.cmake --color= -[ 96%] running checks test_hhblits.py -cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_hhblits.py" Scanning dependencies of target test_kclust.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 96%] running checks test_kclust.py +cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_kclust.py" +.make -f modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_msms.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 96%] running checks test_kclust.py -cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_kclust.py" [ 96%] running checks test_msms.py cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_msms.py" make -f modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/depend @@ -12092,78 +12158,76 @@ make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 96%] running checks test_tmtools.py cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_tmtools.py" -.Could not find kClust executable: ignoring unit tests -No HHblits installation found: skip unit tests -Could not find msms executable: ignoring unit tests -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Could not find kClust executable: ignoring unit tests make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 96%] Built target test_kclust.py_run make -f modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/depend +Could not find msms executable: ignoring unit tests make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/DependInfo.cmake --color= -[ 96%] Built target test_hhblits.py_run -make -f modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/depend -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_ialign.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 96%] Built target test_msms.py_run -make -f modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/depend +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 97%] running checks test_ialign.py +cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_ialign.py" +[ 97%] Built target test_msms.py_run +make -f modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_hbplus.py_run -[ 97%] running checks test_ialign.py make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/build -cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_ialign.py" make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 97%] running checks test_hbplus.py +cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_hbplus.py" +... +---------------------------------------------------------------------- +Ran 2 tests in 0.308s + +OK +Could not find tmalign executable: ignoring unit tests +Could not find tmalign executable: ignoring unit tests +.make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[ 97%] Built target test_tmtools.py_run +make -f modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_lga.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 97%] running checks test_hbplus.py -cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_hbplus.py" -[ 97%] running checks test_lga.py +.[ 97%] running checks test_lga.py cd /build/openstructure-2.2.0/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/bindings/tests/test_lga.py" -Could not find hbplus, could not test binding... -.make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' . ---------------------------------------------------------------------- -Ran 2 tests in 0.222s +Ran 1 test in 0.151s OK -Could not find tmalign executable: ignoring unit tests -Could not find tmalign executable: ignoring unit tests -[ 97%] Built target test_hbplus.py_run +Could not find ialign master perl script: ignoring unit tests +.make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Could not find hbplus, could not test binding... +[ 97%] Built target test_ialign.py_run make -f modules/conop/tests/CMakeFiles/test_processor.py_run.dir/build.make modules/conop/tests/CMakeFiles/test_processor.py_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +.make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests/CMakeFiles/test_processor.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_processor.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/conop/tests/CMakeFiles/test_processor.py_run.dir/build.make modules/conop/tests/CMakeFiles/test_processor.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 97%] running checks test_processor.py +.[ 97%] running checks test_processor.py cd /build/openstructure-2.2.0/modules/conop/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/conop/tests/test_processor.py" make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 97%] Built target test_tmtools.py_run -make -f modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/build.make modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/DependInfo.cmake --color= -.. ----------------------------------------------------------------------- -Ran 1 test in 0.099s - -OK -Could not find ialign master perl script: ignoring unit tests ---------------------------------------------------------------------- -Ran 1 test in 0.132s +Ran 7 tests in 6.689s OK -Could not find lga executable: ignoring unit tests +[ 97%] Built target test_hbplus.py_run +make -f modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/build.make modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/db/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_linear_db.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/build.make modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/build @@ -12171,371 +12235,343 @@ [ 97%] running checks test_linear_db.py cd /build/openstructure-2.2.0/modules/db/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/db/tests/test_linear_db.py" make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 97%] Built target test_ialign.py_run +[ 97%] Built target test_clustalw.py_run make -f modules/geom/tests/CMakeFiles/test_geom.py_run.dir/build.make modules/geom/tests/CMakeFiles/test_geom.py_run.dir/depend -[ 97%] Built target test_lga.py_run -make -f modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/build.make modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/tests/CMakeFiles/test_geom.py_run.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_geom.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Scanning dependencies of target test_gfx.py_run make -f modules/geom/tests/CMakeFiles/test_geom.py_run.dir/build.make modules/geom/tests/CMakeFiles/test_geom.py_run.dir/build -.make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -.make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/build.make modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/build -. +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +...... ---------------------------------------------------------------------- -Ran 1 test in 0.000s +Ran 1 test in 0.011s OK +[ 97%] running checks test_geom.py +cd /build/openstructure-2.2.0/modules/geom/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/geom/tests/test_geom.py" +........make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +.......[ 97%] Built target test_processor.py_run +...make -f modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/build.make modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/gfx/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/DependInfo.cmake --color= +..Scanning dependencies of target test_gfx.py_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/build.make modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' . ---------------------------------------------------------------------- -Ran 3 tests in 0.031s +Ran 3 tests in 0.240s OK -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 97%] running checks test_geom.py -cd /build/openstructure-2.2.0/modules/geom/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/geom/tests/test_geom.py" +. +---------------------------------------------------------------------- [ 98%] running checks test_gfx.py cd /build/openstructure-2.2.0/modules/gfx/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/gfx/tests/test_gfx.py" make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Ran 1 test in 0.192s + +OK +Could not find lga executable: ignoring unit tests [ 98%] Built target test_linear_db.py_run make -f modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/depend -[ 98%] Built target test_processor.py_run make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/DependInfo.cmake --color= -make -f modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/DependInfo.cmake --color= -Scanning dependencies of target test_io_pdb.py_run +..Scanning dependencies of target test_io_pdb.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/build -Scanning dependencies of target test_io_mmcif.py_run -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[ 98%] running checks test_io_pdb.py -[ 98%] running checks test_io_mmcif.py -cd /build/openstructure-2.2.0/modules/io/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/io/tests/test_io_pdb.py" -cd /build/openstructure-2.2.0/modules/io/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/io/tests/test_io_mmcif.py" -........ +.make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +.make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +.... ---------------------------------------------------------------------- -Ran 8 tests in 0.096s +Ran 8 tests in 0.190s OK +[ 98%] running checks test_io_pdb.py +cd /build/openstructure-2.2.0/modules/io/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/io/tests/test_io_pdb.py" +[ 98%] Built target test_lga.py_run +make -f modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/depend make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/DependInfo.cmake --color= [ 98%] Built target test_geom.py_run make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/DependInfo.cmake --color= -...... ----------------------------------------------------------------------- -Ran 6 tests in 0.002s - -OK +Scanning dependencies of target test_io_mmcif.py_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Scanning dependencies of target ost_mol_tests_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/build +[ 98%] running checks test_io_mmcif.py make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/modules/io/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/io/tests/test_io_mmcif.py" [100%] running checks for module mol -[100%] Built target test_gfx.py_run cd /build/openstructure-2.2.0/modules/mol/base/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_mol_tests make -f modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/DependInfo.cmake --color= -make -f modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/depend -Scanning dependencies of target test_pdbize.py_run -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/DependInfo.cmake --color= +..Scanning dependencies of target test_pdbize.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Scanning dependencies of target test_convenient_superpose.py_run -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/build [100%] running checks test_pdbize.py -cd /build/openstructure-2.2.0/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/mol/alg/tests/test_pdbize.py" -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] running checks test_convenient_superpose.py -cd /build/openstructure-2.2.0/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/mol/alg/tests/test_convenient_superpose.py" +.cd /build/openstructure-2.2.0/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/mol/alg/tests/test_pdbize.py" +... +---------------------------------------------------------------------- +Ran 6 tests in 0.273s + +OK +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Running 70 test cases... *** No errors detected -.make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[100%] Built target test_gfx.py_run +make -f modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/DependInfo.cmake --color= [100%] Built target ost_mol_tests_run -make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/depend +make -f modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/DependInfo.cmake --color= -Scanning dependencies of target ost_mol_alg_tests_run +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/DependInfo.cmake --color= +Scanning dependencies of target test_convenient_superpose.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build +make -f modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] running checks for module mol_alg -cd /build/openstructure-2.2.0/modules/mol/alg/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_mol_alg_tests -...s +Scanning dependencies of target test_sec_struct.py_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build +.make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +..s ---------------------------------------------------------------------- -Ran 4 tests in 0.059s +Ran 4 tests in 0.116s OK (skipped=1) +[100%] running checks test_convenient_superpose.py +cd /build/openstructure-2.2.0/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/mol/alg/tests/test_convenient_superpose.py" +[100%] running checks test_sec_struct.py +cd /build/openstructure-2.2.0/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/mol/alg/tests/test_sec_struct.py" +[100%] Linking CXX executable ../../../../tests/ost_seq_tests +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq_tests.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o CMakeFiles/ost_seq_tests.dir/test_profile.cc.o CMakeFiles/ost_seq_tests.dir/tests.cc.o -o ../../../../tests/ost_seq_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] Built target test_io_pdb.py_run -make -f modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/DependInfo.cmake --color= -Scanning dependencies of target test_sec_struct.py_run -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/DependInfo.cmake --color= -[100%] running checks test_sec_struct.py -cd /build/openstructure-2.2.0/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/mol/alg/tests/test_sec_struct.py" Scanning dependencies of target test_hbond.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] running checks test_hbond.py +.[100%] running checks test_hbond.py cd /build/openstructure-2.2.0/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/mol/alg/tests/test_hbond.py" -......... +........ ---------------------------------------------------------------------- -Ran 8 tests in 0.036s +Ran 8 tests in 0.183s OK +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[100%] Built target test_pdbize.py_run make -f modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Scanning dependencies of target test_accessibility.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/build -[100%] Built target test_pdbize.py_run -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/build.make modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/DependInfo.cmake --color= -Running 4 test cases... - -*** No errors detected -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] running checks test_accessibility.py -cd /build/openstructure-2.2.0/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/mol/alg/tests/test_accessibility.py" -[100%] Built target ost_mol_alg_tests_run -make -f modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/DependInfo.cmake --color= -Scanning dependencies of target test_seq.py_run -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/build.make modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Scanning dependencies of target test_alignment_from_chain_view.py_run -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +.cd /build/openstructure-2.2.0/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/mol/alg/tests/test_accessibility.py" +[100%] Linking CXX executable ../../../../tests/ost_seq_alg_tests +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq_alg_tests.dir/link.txt --verbose=1 s ---------------------------------------------------------------------- Ran 1 test in 0.000s OK (skipped=1) -[100%] running checks test_seq.py -cd /build/openstructure-2.2.0/modules/seq/base/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/base/tests/test_seq.py" -[100%] running checks test_alignment_from_chain_view.py -cd /build/openstructure-2.2.0/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/alg/tests/test_alignment_from_chain_view.py" +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -o ../../../../tests/ost_seq_alg_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../../stage/lib/libost_io.so.2.2.0 ../../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../../stage/lib/libost_conop.so.2.2.0 ../../../../stage/lib/libost_db.so.2.2.0 ../../../../stage/lib/libost_seq.so.2.2.0 ../../../../stage/lib/libost_mol.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../../stage/lib/libost_img_alg.so.2.2.0 ../../../../stage/lib/libost_img.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -.. ----------------------------------------------------------------------- -Ran 2 tests in 0.067s - -OK [100%] Built target test_sec_struct.py_run -make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/depend +make -f modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/build.make modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/DependInfo.cmake --color= +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/DependInfo.cmake --color= +Scanning dependencies of target test_seq.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Scanning dependencies of target ost_seq_alg_tests_run +make -f modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/build.make modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/build +.make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +. +---------------------------------------------------------------------- +Ran 2 tests in 0.149s + +OK +[100%] running checks test_seq.py +cd /build/openstructure-2.2.0/modules/seq/base/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/base/tests/test_seq.py" make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] Built target test_hbond.py_run -make -f modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/depend -[100%] running checks for module seq_alg -cd /build/openstructure-2.2.0/modules/seq/alg/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_seq_alg_tests +make -f modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/DependInfo.cmake --color= -Scanning dependencies of target test_local_align.py_run +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/DependInfo.cmake --color= +Scanning dependencies of target test_alignment_from_chain_view.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build +make -f modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -. +[100%] running checks test_alignment_from_chain_view.py +cd /build/openstructure-2.2.0/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/alg/tests/test_alignment_from_chain_view.py" +s. ---------------------------------------------------------------------- -Ran 1 test in 0.011s +Ran 1 test in 0.035s OK -s.[100%] running checks test_local_align.py -cd /build/openstructure-2.2.0/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/alg/tests/test_local_align.py" make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target test_alignment_from_chain_view.py_run -make -f modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/depend .............. ---------------------------------------------------------------------- -Ran 14 tests in 0.023s +Ran 14 tests in 0.073s OK +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[100%] Built target ost_seq_tests +make -f modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/DependInfo.cmake --color= +.[100%] Built target test_alignment_from_chain_view.py_run +make -f modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/DependInfo.cmake --color= -Running 19 test cases... - -*** No errors detected -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Scanning dependencies of target test_local_align.py_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Scanning dependencies of target test_semiglobal_align.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/build make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[100%] running checks test_local_align.py +cd /build/openstructure-2.2.0/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/alg/tests/test_local_align.py" make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[100%] running checks test_semiglobal_align.py +cd /build/openstructure-2.2.0/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/alg/tests/test_semiglobal_align.py" +[100%] Built target test_seq.py_run make -f modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/DependInfo.cmake --color= -[100%] Built target test_seq.py_run -make -f modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/depend -[100%] Built target ost_seq_alg_tests_run -[100%] running checks test_semiglobal_align.py -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/DependInfo.cmake --color= -cd /build/openstructure-2.2.0/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/alg/tests/test_semiglobal_align.py" Scanning dependencies of target test_global_align.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -Scanning dependencies of target test_renumber.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build [100%] running checks test_global_align.py cd /build/openstructure-2.2.0/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/alg/tests/test_global_align.py" +Matplotlib is building the font cache; this may take a moment. +[100%] Built target ost_seq_alg_tests +make -f modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/DependInfo.cmake --color= +.Scanning dependencies of target test_renumber.py_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] running checks test_renumber.py cd /build/openstructure-2.2.0/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ /usr/bin/python3.9 /build/openstructure-2.2.0/modules/seq/alg/tests/test_renumber.py" -........s ----------------------------------------------------------------------- -Ran 10 tests in 3.470s - -OK (skipped=1) -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target test_io_mmcif.py_run -... +.... ---------------------------------------------------------------------- -Ran 3 tests in 0.007s +Ran 3 tests in 0.002s OK -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' . ---------------------------------------------------------------------- -Ran 1 test in 0.002s +Ran 1 test in 0.019s OK +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] Built target test_local_align.py_run -.make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -... +make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/depend +make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/depend +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/DependInfo.cmake --color= +Scanning dependencies of target ost_seq_alg_tests_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +Scanning dependencies of target ost_seq_tests_run +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build +[100%] running checks for module seq_alg +make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +cd /build/openstructure-2.2.0/modules/seq/alg/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_seq_alg_tests +[100%] Built target test_semiglobal_align.py_run +[100%] running checks for module seq +cd /build/openstructure-2.2.0/modules/seq/base/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_seq_tests +.Running 32 test cases... + +*** No errors detected +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +.... ---------------------------------------------------------------------- -Ran 3 tests in 0.011s +Ran 3 tests in 0.002s OK -..[100%] Built target test_semiglobal_align.py_run -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target test_global_align.py_run -...... +.[100%] Built target ost_seq_tests_run +....... ---------------------------------------------------------------------- -Ran 8 tests in 0.292s +Ran 8 tests in 0.403s OK -.make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target test_renumber.py_run -.[100%] Linking CXX executable ../../../tests/ost_conop_tests -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_conop_tests.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o CMakeFiles/ost_conop_tests.dir/tests.cc.o CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o CMakeFiles/ost_conop_tests.dir/helper.cc.o -o ../../../tests/ost_conop_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so -.... +......s ---------------------------------------------------------------------- -Ran 9 tests in 5.987s +Ran 10 tests in 5.637s -OK +OK (skipped=1) make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +.[100%] Built target test_global_align.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target ost_conop_tests -make -f modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/conop/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/DependInfo.cmake --color= -[100%] Built target test_convenient_superpose.py_run -Scanning dependencies of target ost_conop_tests_run -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] running checks for module conop -cd /build/openstructure-2.2.0/modules/conop/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_conop_tests -Running 16 test cases... -unable to open database file -unable to open database file -unable to open database file -unable to open database file -unable to open database file -unable to open database file -unable to open database file -unable to open database file +Running 19 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target ost_conop_tests_run -[100%] Linking CXX executable ../../../../tests/ost_seq_tests -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq_tests.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o CMakeFiles/ost_seq_tests.dir/test_profile.cc.o CMakeFiles/ost_seq_tests.dir/tests.cc.o -o ../../../../tests/ost_seq_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../../stage/lib/libost_seq.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target ost_seq_tests -make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/DependInfo.cmake --color= -Scanning dependencies of target ost_seq_tests_run +[100%] Built target test_renumber.py_run +[100%] Built target ost_seq_alg_tests_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] running checks for module seq -cd /build/openstructure-2.2.0/modules/seq/base/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_seq_tests -Running 32 test cases... +[100%] Built target test_io_mmcif.py_run +.... +---------------------------------------------------------------------- +Ran 9 tests in 8.090s -*** No errors detected -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target ost_seq_tests_run -[100%] Linking CXX executable ../../../../tests/ost_img_alg_tests -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img_alg_tests.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -o ../../../../tests/ost_img_alg_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../../stage/lib/libost_img_alg.so.2.2.0 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.2.0 ../../../../stage/lib/libost_info.so.2.2.0 ../../../../stage/lib/libost_base.so.2.2.0 ../../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 +OK make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target ost_img_alg_tests -make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/depend -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0/modules/img/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/DependInfo.cmake --color= -Scanning dependencies of target ost_img_alg_tests_run +[100%] Built target test_convenient_superpose.py_run +.............../usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/enrichment-out.png'> + method() +ResourceWarning: Enable tracemalloc to get the object allocation traceback +./build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ost/table.py:2963: MatplotlibDeprecationWarning: The 'basex' parameter of __init__() has been renamed 'base' since Matplotlib 3.3; support for the old name will be dropped two minor releases later. + plt.xscale('log', basex=10) +./usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/roc-out.png'> + method() +ResourceWarning: Enable tracemalloc to get the object allocation traceback +./usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/roc-same-val-out.png'> + method() +ResourceWarning: Enable tracemalloc to get the object allocation traceback +................./build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ost/table.py:2186: DeprecationWarning: scipy.isnan is deprecated and will be removed in SciPy 2.0.0, use numpy.isnan instead + if scipy.isnan(correl): +......................... +---------------------------------------------------------------------- +Ran 83 tests in 19.186s + +OK make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build -make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] running checks for module img_alg -cd /build/openstructure-2.2.0/modules/img/alg/tests && env OST_ROOT=/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage /build/openstructure-2.2.0/obj-x86_64-linux-gnu/tests/ost_img_alg_tests +[100%] Built target test_table.py_run . ---------------------------------------------------------------------- -Ran 2 tests in 9.989s +Ran 2 tests in 17.112s OK (skipped=1) Could not find NACCESS, could not compare Accessiblity function... make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] Built target test_accessibility.py_run -Running 25 test cases... - -*** No errors detected -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target ost_img_alg_tests_run [100%] Linking CXX executable ../../../tests/ost_io_tests cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_io_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro CMakeFiles/ost_io_tests.dir/test_clustal.cc.o CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o CMakeFiles/ost_io_tests.dir/test_pir.cc.o CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o CMakeFiles/ost_io_tests.dir/tests.cc.o CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o CMakeFiles/ost_io_tests.dir/test_io_img.cc.o CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o -o ../../../tests/ost_io_tests -L/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib -Wl,-rpath,/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib /usr/lib/x86_64-linux-gnu/libboost_unit_test_framework.so ../../../stage/lib/libost_io.so.2.2.0 ../../../stage/lib/libost_mol_alg.so.2.2.0 ../../../stage/lib/libost_conop.so.2.2.0 ../../../stage/lib/libost_db.so.2.2.0 /usr/lib/x86_64-linux-gnu/libsqlite3.so /usr/lib/x86_64-linux-gnu/libboost_program_options.so /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread /usr/lib/x86_64-linux-gnu/libboost_chrono.so /usr/lib/x86_64-linux-gnu/libboost_date_time.so /usr/lib/x86_64-linux-gnu/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 ../../../stage/lib/libost_img_alg.so.2.2.0 ../../../stage/lib/libost_img.so.2.2.0 ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2 /usr/lib/x86_64-linux-gnu/libfftw3f.so /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so /usr/lib/x86_64-linux-gnu/libboost_iostreams.so /usr/lib/x86_64-linux-gnu/libboost_regex.so /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so /usr/lib/x86_64-linux-gnu/libz.so @@ -12553,23 +12589,23 @@ Running 159 test cases... unable to open database file WARNING: skipping SEQRES import unit test. Compound lib is required +. +---------------------------------------------------------------------- +Ran 2 tests in 128.748s + +OK +Could not find CAD score classic executables: ignoring unit tests unable to open database file WARNING: skipping mmcif_convert_seqres unit test. Compound library is required unable to open database file WARNING: skipping mmcif_entity_poly_tests unit test. Compound library is required unable to open database file +make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' +[100%] Built target test_cadscore.py_run *** No errors detected make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] Built target ost_io_tests_run -. ----------------------------------------------------------------------- -Ran 2 tests in 60.512s - -OK -Could not find CAD score classic executables: ignoring unit tests -make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' -[100%] Built target test_cadscore.py_run make -f CMakeFiles/check.dir/build.make CMakeFiles/check.dir/depend make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.2.0 /build/openstructure-2.2.0 /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu /build/openstructure-2.2.0/obj-x86_64-linux-gnu/CMakeFiles/check.dir/DependInfo.cmake --color= @@ -12589,7 +12625,7 @@ debian/rules override_dh_auto_install make[1]: Entering directory '/build/openstructure-2.2.0' dh_auto_install - cd obj-x86_64-linux-gnu && make -j15 install DESTDIR=/build/openstructure-2.2.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j16 install DESTDIR=/build/openstructure-2.2.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/openstructure-2.2.0 -B/build/openstructure-2.2.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -13657,44 +13693,44 @@ dpkg-gencontrol: warning: package python3-ost: substitution variable ${python3:Versions} unused, but is defined dh_md5sums dh_builddeb +dpkg-deb: building package 'libost-seq-dev' in '../libost-seq-dev_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-geom2.2' in '../libost-geom2.2_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-img2.2' in '../libost-img2.2_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-mol2.2' in '../libost-mol2.2_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-io2.2' in '../libost-io2.2_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-gui2.2' in '../libost-gui2.2_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-gui-dev' in '../libost-gui-dev_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-io-dev' in '../libost-io-dev_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'python3-ost' in '../python3-ost_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-conop2.2' in '../libost-conop2.2_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-conop-dev' in '../libost-conop-dev_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-mol2.2' in '../libost-mol2.2_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-img2.2' in '../libost-img2.2_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-seq2.2' in '../libost-seq2.2_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'python3-ost' in '../python3-ost_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-base2.2' in '../libost-base2.2_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-conop2.2' in '../libost-conop2.2_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-io2.2' in '../libost-io2.2_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-gui-dev' in '../libost-gui-dev_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-geom2.2' in '../libost-geom2.2_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-gui2.2' in '../libost-gui2.2_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-seq-dev' in '../libost-seq-dev_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-db-dev' in '../libost-db-dev_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-base2.2-dbgsym' in '../libost-base2.2-dbgsym_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-geom2.2-dbgsym' in '../libost-geom2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-geom-dev' in '../libost-geom-dev_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-geom2.2-dbgsym' in '../libost-geom2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-seq2.2-dbgsym' in '../libost-seq2.2-dbgsym_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-mol-alg-dev' in '../libost-mol-alg-dev_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-img-alg-dev' in '../libost-img-alg-dev_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-mol-alg-dev' in '../libost-mol-alg-dev_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-gfx-dev' in '../libost-gfx-dev_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-bindings2.2' in '../libost-bindings2.2_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-mol-dev' in '../libost-mol-dev_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-img-dev' in '../libost-img-dev_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-mol-dev' in '../libost-mol-dev_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-img2.2-dbgsym' in '../libost-img2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-conop2.2-dbgsym' in '../libost-conop2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-bindings2.2-dbgsym' in '../libost-bindings2.2-dbgsym_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-img2.2-dbgsym' in '../libost-img2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-info-dev' in '../libost-info-dev_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-seq-alg-dev' in '../libost-seq-alg-dev_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-mol2.2-dbgsym' in '../libost-mol2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-gfx2.2' in '../libost-gfx2.2_2.2.0-6_amd64.deb'. dpkg-deb: building package 'openstructure' in '../openstructure_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-mol2.2-dbgsym' in '../libost-mol2.2-dbgsym_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-io2.2-dbgsym' in '../libost-io2.2-dbgsym_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-info2.2' in '../libost-info2.2_2.2.0-6_amd64.deb'. dpkg-deb: building package 'openstructure-dbgsym' in '../openstructure-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-gui2.2-dbgsym' in '../libost-gui2.2-dbgsym_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-info2.2' in '../libost-info2.2_2.2.0-6_amd64.deb'. -dpkg-deb: building package 'libost-gfx2.2-dbgsym' in '../libost-gfx2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-info2.2-dbgsym' in '../libost-info2.2-dbgsym_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-io2.2-dbgsym' in '../libost-io2.2-dbgsym_2.2.0-6_amd64.deb'. +dpkg-deb: building package 'libost-gfx2.2-dbgsym' in '../libost-gfx2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-db2.2' in '../libost-db2.2_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-db2.2-dbgsym' in '../libost-db2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-seq-alg2.2' in '../libost-seq-alg2.2_2.2.0-6_amd64.deb'. @@ -13713,12 +13749,14 @@ 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/660091/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/660091/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/3566537 and its subdirectories -I: Current time: Thu Dec 30 15:15:16 -12 2021 -I: pbuilder-time-stamp: 1640920516 +I: removing directory /srv/workspace/pbuilder/660091 and its subdirectories +I: Current time: Fri Feb 3 01:18:52 +14 2023 +I: pbuilder-time-stamp: 1675336732