I: pbuilder: network access will be disabled during build 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 I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [openstructure_2.2.0-6.dsc] I: copying [./openstructure_2.2.0.orig.tar.gz] 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.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 dpkg-source: warning: failed to verify signature on ./openstructure_2.2.0-6.dsc dpkg-source: info: extracting openstructure in openstructure-2.2.0 dpkg-source: info: unpacking openstructure_2.2.0.orig.tar.gz dpkg-source: info: unpacking openstructure_2.2.0-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying python-dist-packages.patch dpkg-source: info: applying fix-quotes-in-ENV.patch dpkg-source: info: applying skip-network-tests.patch dpkg-source: info: applying ost-compare-structures.patch dpkg-source: info: applying ost_config.patch dpkg-source: info: applying skip-dssp-tests.patch dpkg-source: info: applying 76a5413023d8823b2cdca5d4b78d7fefd62b63c1.patch dpkg-source: info: applying da57a1f6a1c3a884321c27b438a8329725e546a5.patch dpkg-source: info: applying 5a749faedba0332e8a7be196a9bb72201fa699e9.patch dpkg-source: info: applying 9153648f1b773a1c1186d0a0ac29e78b659cd1f8.patch I: Not using root during the build. I: Installing the build-deps 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 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=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 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 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 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 Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: clustalw, cmake, debhelper-compat (= 13), dh-python, dssp, libboost-all-dev, libeigen3-dev, libfftw3-dev, libglu1-mesa-dev, libpng-dev, libqt5opengl5-dev, libsqlite3-dev, libtiff-dev, python3-dev, python3-matplotlib, python3-numpy, python3-pil, python3-pyqt5, python3-scipy, qtbase5-dev, sip-dev, voronota dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19655 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on clustalw; however: Package clustalw is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on dssp; however: Package dssp is not installed. pbuilder-satisfydepends-dummy depends on libboost-all-dev; however: Package libboost-all-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on libfftw3-dev; however: Package libfftw3-dev is not installed. pbuilder-satisfydepends-dummy depends on libglu1-mesa-dev; however: Package libglu1-mesa-dev is not installed. pbuilder-satisfydepends-dummy depends on libpng-dev; however: Package libpng-dev is not installed. pbuilder-satisfydepends-dummy depends on libqt5opengl5-dev; however: Package libqt5opengl5-dev is not installed. pbuilder-satisfydepends-dummy depends on libsqlite3-dev; however: Package libsqlite3-dev is not installed. pbuilder-satisfydepends-dummy depends on libtiff-dev; however: Package libtiff-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-dev; however: Package python3-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pil; however: Package python3-pil is not installed. pbuilder-satisfydepends-dummy depends on python3-pyqt5; however: Package python3-pyqt5 is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on qtbase5-dev; however: Package qtbase5-dev is not installed. pbuilder-satisfydepends-dummy depends on sip-dev; however: Package sip-dev is not installed. pbuilder-satisfydepends-dummy depends on voronota; however: Package voronota is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} clustalw{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dssp{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-lyx{a} gettext{a} gettext-base{a} gfortran-10{a} groff-base{a} ibverbs-providers{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libblas3{a} libboost-all-dev{a} libboost-atomic-dev{a} libboost-atomic1.74-dev{a} libboost-atomic1.74.0{a} libboost-chrono-dev{a} libboost-chrono1.74-dev{a} libboost-chrono1.74.0{a} libboost-container-dev{a} libboost-container1.74-dev{a} libboost-container1.74.0{a} libboost-context-dev{a} libboost-context1.74-dev{a} libboost-context1.74.0{a} libboost-coroutine-dev{a} libboost-coroutine1.74-dev{a} libboost-coroutine1.74.0{a} libboost-date-time-dev{a} libboost-date-time1.74-dev{a} libboost-date-time1.74.0{a} libboost-dev{a} libboost-exception-dev{a} libboost-exception1.74-dev{a} libboost-fiber-dev{a} libboost-fiber1.74-dev{a} libboost-fiber1.74.0{a} libboost-filesystem-dev{a} libboost-filesystem1.74-dev{a} libboost-filesystem1.74.0{a} libboost-graph-dev{a} libboost-graph-parallel-dev{a} libboost-graph-parallel1.74-dev{a} libboost-graph-parallel1.74.0{a} libboost-graph1.74-dev{a} libboost-graph1.74.0{a} libboost-iostreams-dev{a} libboost-iostreams1.74-dev{a} libboost-locale-dev{a} libboost-locale1.74-dev{a} libboost-locale1.74.0{a} libboost-log-dev{a} libboost-log1.74-dev{a} libboost-log1.74.0{a} libboost-math-dev{a} libboost-math1.74-dev{a} libboost-math1.74.0{a} libboost-mpi-dev{a} libboost-mpi-python-dev{a} libboost-mpi-python1.74-dev{a} libboost-mpi-python1.74.0{a} libboost-mpi1.74-dev{a} libboost-mpi1.74.0{a} libboost-nowide-dev{a} libboost-nowide1.74-dev{a} libboost-nowide1.74.0{a} libboost-numpy-dev{a} libboost-numpy1.74-dev{a} libboost-numpy1.74.0{a} libboost-program-options-dev{a} libboost-program-options1.74-dev{a} libboost-program-options1.74.0{a} libboost-python-dev{a} libboost-python1.74-dev{a} libboost-python1.74.0{a} libboost-random-dev{a} libboost-random1.74-dev{a} libboost-random1.74.0{a} libboost-regex-dev{a} libboost-regex1.74-dev{a} libboost-regex1.74.0{a} libboost-serialization-dev{a} libboost-serialization1.74-dev{a} libboost-serialization1.74.0{a} libboost-stacktrace-dev{a} libboost-stacktrace1.74-dev{a} libboost-stacktrace1.74.0{a} libboost-system-dev{a} libboost-system1.74-dev{a} libboost-system1.74.0{a} libboost-test-dev{a} libboost-test1.74-dev{a} libboost-test1.74.0{a} libboost-thread-dev{a} libboost-thread1.74-dev{a} libboost-thread1.74.0{a} libboost-timer-dev{a} libboost-timer1.74-dev{a} libboost-timer1.74.0{a} libboost-tools-dev{a} libboost-type-erasure-dev{a} libboost-type-erasure1.74-dev{a} libboost-type-erasure1.74.0{a} libboost-wave-dev{a} libboost-wave1.74-dev{a} libboost-wave1.74.0{a} libboost1.74-dev{a} libboost1.74-tools-dev{a} libbrotli1{a} libbsd0{a} libcbor0{a} libcifpp1{a} libcups2{a} libcurl4{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdouble-conversion3{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libegl-dev{a} libegl-mesa0{a} libegl1{a} libeigen3-dev{a} libelf1{a} libevdev2{a} libevent-2.1-7{a} libevent-core-2.1-7{a} libevent-dev{a} libevent-extra-2.1-7{a} libevent-openssl-2.1-7{a} libevent-pthreads-2.1-7{a} libexpat1{a} libexpat1-dev{a} libfabric1{a} libfftw3-bin{a} libfftw3-dev{a} libfftw3-double3{a} libfftw3-long3{a} libfftw3-quad3{a} libfftw3-single3{a} libfido2-1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libgbm1{a} libgfortran-10-dev{a} libgfortran5{a} libgl-dev{a} libgl1{a} libgl1-mesa-dev{a} libgl1-mesa-dri{a} libglapi-mesa{a} libgles-dev{a} libgles1{a} libgles2{a} libglib2.0-0{a} libglu1-mesa{a} libglu1-mesa-dev{a} libglvnd-dev{a} libglvnd0{a} libglx-dev{a} libglx-mesa0{a} libglx0{a} libgraphite2-3{a} libgudev-1.0-0{a} libharfbuzz0b{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibverbs-dev{a} libibverbs1{a} libice6{a} libicu-dev{a} libicu67{a} libimagequant0{a} libinput-bin{a} libinput10{a} libjbig-dev{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libjsoncpp24{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-2.4-2{a} libllvm11{a} libltdl-dev{a} libltdl7{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmd4c0{a} libmpdec3{a} libmtdev1{a} libncurses6{a} libnghttp2-14{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnuma-dev{a} libnuma1{a} libopengl-dev{a} libopengl0{a} libopenmpi-dev{a} libopenmpi3{a} libpciaccess0{a} libpcre2-16-0{a} libpipeline1{a} libpmix-dev{a} libpmix2{a} libpng-dev{a} libpng16-16{a} libprocps8{a} libpsl5{a} libpsm-infinipath1{a} libpsm2-2{a} libpthread-stubs0-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.9{a} libpython3.9-dev{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libqt5concurrent5{a} libqt5core5a{a} libqt5dbus5{a} libqt5designer5{a} libqt5gui5{a} libqt5help5{a} libqt5network5{a} libqt5opengl5{a} libqt5opengl5-dev{a} libqt5printsupport5{a} libqt5sql5{a} libqt5test5{a} libqt5widgets5{a} libqt5xml5{a} librdmacm1{a} libreadline8{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libsm6{a} libsqlite3-dev{a} libssh2-1{a} libsub-override-perl{a} libtiff-dev{a} libtiff5{a} libtiffxx5{a} libtool{a} libuchardet0{a} libucx0{a} libuv1{a} libvulkan-dev{a} libvulkan1{a} libwacom-common{a} libwacom2{a} libwayland-client0{a} libwayland-server0{a} libwebp6{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb1{a} libxau-dev{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-icccm4{a} libxcb-image0{a} libxcb-keysyms1{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render-util0{a} libxcb-render0{a} libxcb-shape0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-util1{a} libxcb-xfixes0{a} libxcb-xinerama0{a} libxcb-xinput0{a} libxcb-xkb1{a} libxcb1{a} libxcb1-dev{a} libxdamage1{a} libxdmcp-dev{a} libxdmcp6{a} libxext-dev{a} libxext6{a} libxfixes3{a} libxkbcommon-x11-0{a} libxkbcommon0{a} libxml2{a} libxnvctrl0{a} libxrender1{a} libxshmfence1{a} libxxf86vm1{a} libz3-4{a} m4{a} mailcap{a} man-db{a} media-types{a} mime-support{a} mpi-default-bin{a} mpi-default-dev{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} pkg-config{a} po-debconf{a} procps{a} python-matplotlib-data{a} python3{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-kiwisolver{a} python3-lib2to3{a} python3-matplotlib{a} python3-minimal{a} python3-numpy{a} python3-pil{a} python3-pkg-resources{a} python3-pyparsing{a} python3-pyqt5{a} python3-pyqt5.sip{a} python3-scipy{a} python3-six{a} python3.9{a} python3.9-dev{a} python3.9-minimal{a} qt5-qmake{a} qt5-qmake-bin{a} qtbase5-dev{a} qtbase5-dev-tools{a} qtchooser{a} readline-common{a} sensible-utils{a} shared-mime-info{a} sip-dev{a} ttf-bitstream-vera{a} ucf{a} voronota{a} x11-common{a} x11proto-dev{a} x11proto-xext-dev{a} xkb-data{a} xorg-sgml-doctools{a} xtrans-dev{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl dbus javascript-common libarchive-cpio-perl libcoarrays-openmpi-dev libglib2.0-data libgpm2 libldap-common libmail-sendmail-perl libpng-tools libqt5sql5-ibase libqt5sql5-mysql libqt5sql5-odbc libqt5sql5-psql libqt5sql5-sqlite libqt5sql5-tds libqt5svg5 libsasl2-modules libwacom-bin lynx mesa-vulkan-drivers psmisc publicsuffix python3-olefile python3-sip-dev python3-tk qt5-gtk-platformtheme qttranslations5-l10n wget xauth xdg-user-dirs 0 packages upgraded, 396 newly installed, 0 to remove and 0 not upgraded. Need to get 214 MB of archives. After unpacking 1055 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2 [96.9 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 mailcap all 3.69 [31.7 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 mime-support all 3.66 [10.9 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 libncurses6 amd64 6.2+20201114-2 [102 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 libprocps8 amd64 2:3.3.17-5 [63.9 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 procps amd64 2:3.3.17-5 [502 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1 [108 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 libedit2 amd64 3.1-20191231-2+b1 [96.7 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 libcbor0 amd64 0.5.0+dfsg-2 [24.0 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 libfido2-1 amd64 1.6.0-2 [53.3 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 openssh-client amd64 1:8.4p1-5 [929 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 ucf all 3.0043 [74.0 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 clustalw amd64 2.1+lgpl-7 [282 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 cmake-data all 3.18.4-2+deb11u1 [1725 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 libarchive13 amd64 3.4.3-2+b1 [343 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3 [232 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libcurl4 amd64 7.74.0-1.3+deb11u1 [341 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 libjsoncpp24 amd64 1.9.4-4 [78.9 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 librhash0 amd64 1.4.1-2 [129 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 libuv1 amd64 1.40.0-2 [132 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 cmake amd64 3.18.4-2+deb11u1 [5593 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 63 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 64 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 66 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 67 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 68 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 69 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 70 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 71 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 72 http://deb.debian.org/debian bullseye/main amd64 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 73 http://deb.debian.org/debian bullseye/main amd64 python3-distutils all 3.9.2-1 [143 kB] Get: 74 http://deb.debian.org/debian bullseye/main amd64 dh-python all 4.20201102+nmu1 [99.4 kB] Get: 75 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options1.74.0 amd64 1.74.0-9 [356 kB] Get: 76 http://deb.debian.org/debian bullseye/main amd64 libcifpp1 amd64 1.0.1-3 [1447 kB] Get: 77 http://deb.debian.org/debian bullseye/main amd64 dssp amd64 4.0.0-2 [128 kB] Get: 78 http://deb.debian.org/debian bullseye/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get: 79 http://deb.debian.org/debian bullseye/main amd64 libfreetype6 amd64 2.10.4+dfsg-1 [418 kB] Get: 80 http://deb.debian.org/debian bullseye/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB] Get: 81 http://deb.debian.org/debian bullseye/main amd64 ttf-bitstream-vera all 1.10-8.1 [223 kB] Get: 82 http://deb.debian.org/debian bullseye/main amd64 fontconfig-config all 2.13.1-4.2 [281 kB] Get: 83 http://deb.debian.org/debian bullseye/main amd64 libfontconfig1 amd64 2.13.1-4.2 [347 kB] Get: 84 http://deb.debian.org/debian bullseye/main amd64 fontconfig amd64 2.13.1-4.2 [417 kB] Get: 85 http://deb.debian.org/debian bullseye/main amd64 fonts-lyx all 2.3.6-1 [205 kB] Get: 86 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get: 87 http://deb.debian.org/debian bullseye/main amd64 libgfortran-10-dev amd64 10.2.1-6 [769 kB] Get: 88 http://deb.debian.org/debian bullseye/main amd64 gfortran-10 amd64 10.2.1-6 [9447 kB] Get: 89 http://deb.debian.org/debian bullseye/main amd64 libnl-3-200 amd64 3.4.0-1+b1 [63.6 kB] Get: 90 http://deb.debian.org/debian bullseye/main amd64 libnl-route-3-200 amd64 3.4.0-1+b1 [161 kB] Get: 91 http://deb.debian.org/debian bullseye/main amd64 libibverbs1 amd64 33.2-1 [59.4 kB] Get: 92 http://deb.debian.org/debian bullseye/main amd64 ibverbs-providers amd64 33.2-1 [253 kB] Get: 93 http://deb.debian.org/debian bullseye/main amd64 icu-devtools amd64 67.1-7 [201 kB] Get: 94 http://deb.debian.org/debian bullseye/main amd64 libavahi-common-data amd64 0.8-5 [124 kB] Get: 95 http://deb.debian.org/debian bullseye/main amd64 libavahi-common3 amd64 0.8-5 [58.4 kB] Get: 96 http://deb.debian.org/debian bullseye/main amd64 libdbus-1-3 amd64 1.12.20-2 [219 kB] Get: 97 http://deb.debian.org/debian bullseye/main amd64 libavahi-client3 amd64 0.8-5 [62.1 kB] Get: 98 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3 [153 kB] Get: 99 http://deb.debian.org/debian bullseye/main amd64 libboost1.74-dev amd64 1.74.0-9 [9534 kB] Get: 100 http://deb.debian.org/debian bullseye/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get: 101 http://deb.debian.org/debian bullseye/main amd64 libboost1.74-tools-dev amd64 1.74.0-9 [1465 kB] Get: 102 http://deb.debian.org/debian bullseye/main amd64 libboost-tools-dev amd64 1.74.0.3 [4508 B] Get: 103 http://deb.debian.org/debian bullseye/main amd64 libboost-atomic1.74.0 amd64 1.74.0-9 [244 kB] Get: 104 http://deb.debian.org/debian bullseye/main amd64 libboost-atomic1.74-dev amd64 1.74.0-9 [245 kB] Get: 105 http://deb.debian.org/debian bullseye/main amd64 libboost-atomic-dev amd64 1.74.0.3 [4640 B] Get: 106 http://deb.debian.org/debian bullseye/main amd64 libboost-chrono1.74.0 amd64 1.74.0-9 [252 kB] Get: 107 http://deb.debian.org/debian bullseye/main amd64 libboost-chrono1.74-dev amd64 1.74.0-9 [260 kB] Get: 108 http://deb.debian.org/debian bullseye/main amd64 libboost-chrono-dev amd64 1.74.0.3 [4960 B] Get: 109 http://deb.debian.org/debian bullseye/main amd64 libboost-container1.74.0 amd64 1.74.0-9 [270 kB] Get: 110 http://deb.debian.org/debian bullseye/main amd64 libboost-container1.74-dev amd64 1.74.0-9 [274 kB] Get: 111 http://deb.debian.org/debian bullseye/main amd64 libboost-container-dev amd64 1.74.0.3 [4812 B] Get: 112 http://deb.debian.org/debian bullseye/main amd64 libboost-date-time1.74.0 amd64 1.74.0-9 [241 kB] Get: 113 http://deb.debian.org/debian bullseye/main amd64 libboost-serialization1.74.0 amd64 1.74.0-9 [340 kB] Get: 114 http://deb.debian.org/debian bullseye/main amd64 libboost-serialization1.74-dev amd64 1.74.0-9 [383 kB] Get: 115 http://deb.debian.org/debian bullseye/main amd64 libboost-date-time1.74-dev amd64 1.74.0-9 [250 kB] Get: 116 http://deb.debian.org/debian bullseye/main amd64 libboost-system1.74.0 amd64 1.74.0-9 [241 kB] Get: 117 http://deb.debian.org/debian bullseye/main amd64 libboost-system1.74-dev amd64 1.74.0-9 [243 kB] Get: 118 http://deb.debian.org/debian bullseye/main amd64 libboost-thread1.74.0 amd64 1.74.0-9 [279 kB] Get: 119 http://deb.debian.org/debian bullseye/main amd64 libboost-thread1.74-dev amd64 1.74.0-9 [290 kB] Get: 120 http://deb.debian.org/debian bullseye/main amd64 libboost-context1.74.0 amd64 1.74.0-9 [243 kB] Get: 121 http://deb.debian.org/debian bullseye/main amd64 libboost-context1.74-dev amd64 1.74.0-9 [244 kB] Get: 122 http://deb.debian.org/debian bullseye/main amd64 libboost-context-dev amd64 1.74.0.3 [4540 B] Get: 123 http://deb.debian.org/debian bullseye/main amd64 libboost-coroutine1.74.0 amd64 1.74.0-9 [257 kB] Get: 124 http://deb.debian.org/debian bullseye/main amd64 libboost-coroutine1.74-dev amd64 1.74.0-9 [265 kB] Get: 125 http://deb.debian.org/debian bullseye/main amd64 libboost-coroutine-dev amd64 1.74.0.3 [4608 B] Get: 126 http://deb.debian.org/debian bullseye/main amd64 libboost-date-time-dev amd64 1.74.0.3 [4332 B] Get: 127 http://deb.debian.org/debian bullseye/main amd64 libboost-exception1.74-dev amd64 1.74.0-9 [241 kB] Get: 128 http://deb.debian.org/debian bullseye/main amd64 libboost-exception-dev amd64 1.74.0.3 [4320 B] Get: 129 http://deb.debian.org/debian bullseye/main amd64 libboost-filesystem1.74.0 amd64 1.74.0-9 [283 kB] Get: 130 http://deb.debian.org/debian bullseye/main amd64 libboost-filesystem1.74-dev amd64 1.74.0-9 [304 kB] Get: 131 http://deb.debian.org/debian bullseye/main amd64 libboost-fiber1.74.0 amd64 1.74.0-9 [264 kB] Get: 132 http://deb.debian.org/debian bullseye/main amd64 libboost-fiber1.74-dev amd64 1.74.0-9 [275 kB] Get: 133 http://deb.debian.org/debian bullseye/main amd64 libboost-fiber-dev amd64 1.74.0.3 [4764 B] Get: 134 http://deb.debian.org/debian bullseye/main amd64 libboost-filesystem-dev amd64 1.74.0.3 [4368 B] Get: 135 http://deb.debian.org/debian bullseye/main amd64 libboost-regex1.74.0 amd64 1.74.0-9 [516 kB] Get: 136 http://deb.debian.org/debian bullseye/main amd64 libboost-graph1.74.0 amd64 1.74.0-9 [326 kB] Get: 137 http://deb.debian.org/debian bullseye/main amd64 libicu-dev amd64 67.1-7 [9597 kB] Get: 138 http://deb.debian.org/debian bullseye/main amd64 libboost-regex1.74-dev amd64 1.74.0-9 [588 kB] Get: 139 http://deb.debian.org/debian bullseye/main amd64 libboost-test1.74.0 amd64 1.74.0-9 [472 kB] Get: 140 http://deb.debian.org/debian bullseye/main amd64 libboost-test1.74-dev amd64 1.74.0-9 [547 kB] Get: 141 http://deb.debian.org/debian bullseye/main amd64 libboost-graph1.74-dev amd64 1.74.0-9 [346 kB] Get: 142 http://deb.debian.org/debian bullseye/main amd64 libboost-graph-dev amd64 1.74.0.3 [4436 B] Get: 143 http://deb.debian.org/debian bullseye/main amd64 libevent-core-2.1-7 amd64 2.1.12-stable-1 [139 kB] Get: 144 http://deb.debian.org/debian bullseye/main amd64 libevent-pthreads-2.1-7 amd64 2.1.12-stable-1 [57.1 kB] Get: 145 http://deb.debian.org/debian bullseye/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.1 [169 kB] Get: 146 http://deb.debian.org/debian bullseye/main amd64 libnuma1 amd64 2.0.12-1+b1 [26.3 kB] Get: 147 http://deb.debian.org/debian bullseye/main amd64 libpsm2-2 amd64 11.2.185-1 [181 kB] Get: 148 http://deb.debian.org/debian bullseye/main amd64 librdmacm1 amd64 33.2-1 [68.9 kB] Get: 149 http://deb.debian.org/debian bullseye/main amd64 libfabric1 amd64 1.11.0-2 [521 kB] Get: 150 http://deb.debian.org/debian bullseye/main amd64 libhwloc15 amd64 2.4.1+dfsg-1 [150 kB] Get: 151 http://deb.debian.org/debian bullseye/main amd64 libpciaccess0 amd64 0.16-1 [53.6 kB] Get: 152 http://deb.debian.org/debian bullseye/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 153 http://deb.debian.org/debian bullseye/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 154 http://deb.debian.org/debian bullseye/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get: 155 http://deb.debian.org/debian bullseye/main amd64 libx11-data all 2:1.7.2-1 [311 kB] Get: 156 http://deb.debian.org/debian bullseye/main amd64 libx11-6 amd64 2:1.7.2-1 [772 kB] Get: 157 http://deb.debian.org/debian bullseye/main amd64 libxext6 amd64 2:1.3.3-1.1 [52.7 kB] Get: 158 http://deb.debian.org/debian bullseye/main amd64 libxnvctrl0 amd64 460.91.03-1 [26.9 kB] Get: 159 http://deb.debian.org/debian bullseye/main amd64 ocl-icd-libopencl1 amd64 2.2.14-2 [42.5 kB] Get: 160 http://deb.debian.org/debian bullseye/main amd64 libhwloc-plugins amd64 2.4.1+dfsg-1 [21.4 kB] Get: 161 http://deb.debian.org/debian bullseye/main amd64 libpmix2 amd64 4.0.0-4.1 [552 kB] Get: 162 http://deb.debian.org/debian bullseye/main amd64 libucx0 amd64 1.10.1~rc1+really.1.10.0-1 [649 kB] Get: 163 http://deb.debian.org/debian bullseye/main amd64 libopenmpi3 amd64 4.1.0-10 [2370 kB] Get: 164 http://deb.debian.org/debian bullseye/main amd64 libboost-mpi1.74.0 amd64 1.74.0-9 [281 kB] Get: 165 http://deb.debian.org/debian bullseye/main amd64 libboost-graph-parallel1.74.0 amd64 1.74.0-9 [291 kB] Get: 166 http://deb.debian.org/debian bullseye/main amd64 libboost-graph-parallel1.74-dev amd64 1.74.0-9 [295 kB] Get: 167 http://deb.debian.org/debian bullseye/main amd64 libboost-graph-parallel-dev amd64 1.74.0.3 [4460 B] Get: 168 http://deb.debian.org/debian bullseye/main amd64 libboost-iostreams1.74-dev amd64 1.74.0-9 [273 kB] Get: 169 http://deb.debian.org/debian bullseye/main amd64 libboost-iostreams-dev amd64 1.74.0.3 [4316 B] Get: 170 http://deb.debian.org/debian bullseye/main amd64 libboost-locale1.74.0 amd64 1.74.0-9 [472 kB] Get: 171 http://deb.debian.org/debian bullseye/main amd64 libboost-locale1.74-dev amd64 1.74.0-9 [573 kB] Get: 172 http://deb.debian.org/debian bullseye/main amd64 libboost-locale-dev amd64 1.74.0.3 [4660 B] Get: 173 http://deb.debian.org/debian bullseye/main amd64 libboost-log1.74.0 amd64 1.74.0-9 [619 kB] Get: 174 http://deb.debian.org/debian bullseye/main amd64 libboost-log1.74-dev amd64 1.74.0-9 [814 kB] Get: 175 http://deb.debian.org/debian bullseye/main amd64 libboost-log-dev amd64 1.74.0.3 [4540 B] Get: 176 http://deb.debian.org/debian bullseye/main amd64 libboost-math1.74.0 amd64 1.74.0-9 [521 kB] Get: 177 http://deb.debian.org/debian bullseye/main amd64 libboost-math1.74-dev amd64 1.74.0-9 [599 kB] Get: 178 http://deb.debian.org/debian bullseye/main amd64 libboost-math-dev amd64 1.74.0.3 [4532 B] Get: 179 http://deb.debian.org/debian bullseye/main amd64 openmpi-common all 4.1.0-10 [179 kB] Get: 180 http://deb.debian.org/debian bullseye/main amd64 libnl-3-dev amd64 3.4.0-1+b1 [102 kB] Get: 181 http://deb.debian.org/debian bullseye/main amd64 libnl-route-3-dev amd64 3.4.0-1+b1 [176 kB] Get: 182 http://deb.debian.org/debian bullseye/main amd64 libibverbs-dev amd64 33.2-1 [487 kB] Get: 183 http://deb.debian.org/debian bullseye/main amd64 libnuma-dev amd64 2.0.12-1+b1 [39.3 kB] Get: 184 http://deb.debian.org/debian bullseye/main amd64 libltdl7 amd64 2.4.6-15 [391 kB] Get: 185 http://deb.debian.org/debian bullseye/main amd64 libltdl-dev amd64 2.4.6-15 [162 kB] Get: 186 http://deb.debian.org/debian bullseye/main amd64 libhwloc-dev amd64 2.4.1+dfsg-1 [231 kB] Get: 187 http://deb.debian.org/debian bullseye/main amd64 libevent-2.1-7 amd64 2.1.12-stable-1 [188 kB] Get: 188 http://deb.debian.org/debian bullseye/main amd64 libevent-extra-2.1-7 amd64 2.1.12-stable-1 [110 kB] Get: 189 http://deb.debian.org/debian bullseye/main amd64 libevent-openssl-2.1-7 amd64 2.1.12-stable-1 [64.1 kB] Get: 190 http://deb.debian.org/debian bullseye/main amd64 libevent-dev amd64 2.1.12-stable-1 [311 kB] Get: 191 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] Get: 192 http://deb.debian.org/debian bullseye/main amd64 libpmix-dev amd64 4.0.0-4.1 [655 kB] Get: 193 http://deb.debian.org/debian bullseye/main amd64 libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB] Get: 194 http://deb.debian.org/debian bullseye/main amd64 libjs-jquery-ui all 1.12.1+dfsg-8+deb11u1 [232 kB] Get: 195 http://deb.debian.org/debian bullseye/main amd64 openmpi-bin amd64 4.1.0-10 [238 kB] Get: 196 http://deb.debian.org/debian bullseye/main amd64 libopenmpi-dev amd64 4.1.0-10 [1192 kB] Get: 197 http://deb.debian.org/debian bullseye/main amd64 mpi-default-dev amd64 1.13 [5476 B] Get: 198 http://deb.debian.org/debian bullseye/main amd64 libboost-mpi1.74-dev amd64 1.74.0-9 [303 kB] Get: 199 http://deb.debian.org/debian bullseye/main amd64 libboost-mpi-dev amd64 1.74.0.3 [4420 B] Get: 200 http://deb.debian.org/debian bullseye/main amd64 libboost-python1.74.0 amd64 1.74.0-9 [313 kB] Get: 201 http://deb.debian.org/debian bullseye/main amd64 mpi-default-bin amd64 1.13 [4672 B] Get: 202 http://deb.debian.org/debian bullseye/main amd64 libboost-mpi-python1.74.0 amd64 1.74.0-9 [247 kB] Get: 203 http://deb.debian.org/debian bullseye/main amd64 libboost-mpi-python1.74-dev amd64 1.74.0-9 [248 kB] Get: 204 http://deb.debian.org/debian bullseye/main amd64 libboost-mpi-python-dev amd64 1.74.0.3 [4456 B] Get: 205 http://deb.debian.org/debian bullseye/main amd64 libboost-numpy1.74.0 amd64 1.74.0-9 [252 kB] Get: 206 http://deb.debian.org/debian bullseye/main amd64 libboost-numpy1.74-dev amd64 1.74.0-9 [256 kB] Get: 207 http://deb.debian.org/debian bullseye/main amd64 libboost-numpy-dev amd64 1.74.0.3 [4376 B] Get: 208 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options1.74-dev amd64 1.74.0-9 [386 kB] Get: 209 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options-dev amd64 1.74.0.3 [4340 B] Get: 210 http://deb.debian.org/debian bullseye/main amd64 libpython3.9 amd64 3.9.2-1 [1691 kB] Get: 211 http://deb.debian.org/debian bullseye/main amd64 libexpat1-dev amd64 2.2.10-2 [140 kB] Get: 212 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-dev amd64 3.9.2-1 [4028 kB] Get: 213 http://deb.debian.org/debian bullseye/main amd64 libpython3-dev amd64 3.9.2-3 [21.7 kB] Get: 214 http://deb.debian.org/debian bullseye/main amd64 python3.9-dev amd64 3.9.2-1 [515 kB] Get: 215 http://deb.debian.org/debian bullseye/main amd64 libjs-underscore all 1.9.1~dfsg-3 [100 kB] Get: 216 http://deb.debian.org/debian bullseye/main amd64 libjs-sphinxdoc all 3.4.3-2 [127 kB] Get: 217 http://deb.debian.org/debian bullseye/main amd64 python3-dev amd64 3.9.2-3 [24.8 kB] Get: 218 http://deb.debian.org/debian bullseye/main amd64 libboost-python1.74-dev amd64 1.74.0-9 [336 kB] Get: 219 http://deb.debian.org/debian bullseye/main amd64 libboost-python-dev amd64 1.74.0.3 [4632 B] Get: 220 http://deb.debian.org/debian bullseye/main amd64 libboost-random1.74.0 amd64 1.74.0-9 [251 kB] Get: 221 http://deb.debian.org/debian bullseye/main amd64 libboost-random1.74-dev amd64 1.74.0-9 [254 kB] Get: 222 http://deb.debian.org/debian bullseye/main amd64 libboost-random-dev amd64 1.74.0.3 [4336 B] Get: 223 http://deb.debian.org/debian bullseye/main amd64 libboost-regex-dev amd64 1.74.0.3 [4600 B] Get: 224 http://deb.debian.org/debian bullseye/main amd64 libboost-serialization-dev amd64 1.74.0.3 [4560 B] Get: 225 http://deb.debian.org/debian bullseye/main amd64 libboost-stacktrace1.74.0 amd64 1.74.0-9 [279 kB] Get: 226 http://deb.debian.org/debian bullseye/main amd64 libboost-stacktrace1.74-dev amd64 1.74.0-9 [255 kB] Get: 227 http://deb.debian.org/debian bullseye/main amd64 libboost-stacktrace-dev amd64 1.74.0.3 [4328 B] Get: 228 http://deb.debian.org/debian bullseye/main amd64 libboost-system-dev amd64 1.74.0.3 [4468 B] Get: 229 http://deb.debian.org/debian bullseye/main amd64 libboost-test-dev amd64 1.74.0.3 [4368 B] Get: 230 http://deb.debian.org/debian bullseye/main amd64 libboost-thread-dev amd64 1.74.0.3 [4356 B] Get: 231 http://deb.debian.org/debian bullseye/main amd64 libboost-timer1.74.0 amd64 1.74.0-9 [250 kB] Get: 232 http://deb.debian.org/debian bullseye/main amd64 libboost-timer1.74-dev amd64 1.74.0-9 [254 kB] Get: 233 http://deb.debian.org/debian bullseye/main amd64 libboost-timer-dev amd64 1.74.0.3 [4456 B] Get: 234 http://deb.debian.org/debian bullseye/main amd64 libboost-type-erasure1.74.0 amd64 1.74.0-9 [256 kB] Get: 235 http://deb.debian.org/debian bullseye/main amd64 libboost-type-erasure1.74-dev amd64 1.74.0-9 [260 kB] Get: 236 http://deb.debian.org/debian bullseye/main amd64 libboost-type-erasure-dev amd64 1.74.0.3 [4428 B] Get: 237 http://deb.debian.org/debian bullseye/main amd64 libboost-wave1.74.0 amd64 1.74.0-9 [433 kB] Get: 238 http://deb.debian.org/debian bullseye/main amd64 libboost-wave1.74-dev amd64 1.74.0-9 [486 kB] Get: 239 http://deb.debian.org/debian bullseye/main amd64 libboost-wave-dev amd64 1.74.0.3 [4360 B] Get: 240 http://deb.debian.org/debian bullseye/main amd64 libboost-nowide1.74.0 amd64 1.74.0-9 [243 kB] Get: 241 http://deb.debian.org/debian bullseye/main amd64 libboost-nowide1.74-dev amd64 1.74.0-9 [245 kB] Get: 242 http://deb.debian.org/debian bullseye/main amd64 libboost-nowide-dev amd64 1.74.0.3 [4392 B] Get: 243 http://deb.debian.org/debian bullseye/main amd64 libboost-all-dev amd64 1.74.0.3 [4680 B] Get: 244 http://deb.debian.org/debian bullseye/main amd64 libcups2 amd64 2.3.3op2-3+deb11u1 [350 kB] Get: 245 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get: 246 http://deb.debian.org/debian bullseye/main amd64 libdeflate-dev amd64 1.7-1 [46.9 kB] Get: 247 http://deb.debian.org/debian bullseye/main amd64 libdouble-conversion3 amd64 3.1.5-6.1 [41.0 kB] Get: 248 http://deb.debian.org/debian bullseye/main amd64 libdrm-common all 2.4.104-1 [14.9 kB] Get: 249 http://deb.debian.org/debian bullseye/main amd64 libdrm2 amd64 2.4.104-1 [41.5 kB] Get: 250 http://deb.debian.org/debian bullseye/main amd64 libdrm-amdgpu1 amd64 2.4.104-1 [28.5 kB] Get: 251 http://deb.debian.org/debian bullseye/main amd64 libdrm-intel1 amd64 2.4.104-1 [71.8 kB] Get: 252 http://deb.debian.org/debian bullseye/main amd64 libdrm-nouveau2 amd64 2.4.104-1 [26.8 kB] Get: 253 http://deb.debian.org/debian bullseye/main amd64 libdrm-radeon1 amd64 2.4.104-1 [30.2 kB] Get: 254 http://deb.debian.org/debian bullseye/main amd64 libglvnd0 amd64 1.3.2-1 [53.6 kB] Get: 255 http://deb.debian.org/debian bullseye/main amd64 libwayland-server0 amd64 1.18.0-2~exp1.1 [34.4 kB] Get: 256 http://deb.debian.org/debian bullseye/main amd64 libgbm1 amd64 20.3.5-1 [73.5 kB] Get: 257 http://deb.debian.org/debian bullseye/main amd64 libglapi-mesa amd64 20.3.5-1 [71.7 kB] Get: 258 http://deb.debian.org/debian bullseye/main amd64 libwayland-client0 amd64 1.18.0-2~exp1.1 [26.9 kB] Get: 259 http://deb.debian.org/debian bullseye/main amd64 libx11-xcb1 amd64 2:1.7.2-1 [203 kB] Get: 260 http://deb.debian.org/debian bullseye/main amd64 libxcb-dri2-0 amd64 1.14-3 [103 kB] Get: 261 http://deb.debian.org/debian bullseye/main amd64 libxcb-dri3-0 amd64 1.14-3 [102 kB] Get: 262 http://deb.debian.org/debian bullseye/main amd64 libxcb-present0 amd64 1.14-3 [101 kB] Get: 263 http://deb.debian.org/debian bullseye/main amd64 libxcb-sync1 amd64 1.14-3 [105 kB] Get: 264 http://deb.debian.org/debian bullseye/main amd64 libxcb-xfixes0 amd64 1.14-3 [105 kB] Get: 265 http://deb.debian.org/debian bullseye/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get: 266 http://deb.debian.org/debian bullseye/main amd64 libegl-mesa0 amd64 20.3.5-1 [141 kB] Get: 267 http://deb.debian.org/debian bullseye/main amd64 libegl1 amd64 1.3.2-1 [34.8 kB] Get: 268 http://deb.debian.org/debian bullseye/main amd64 libxcb-glx0 amd64 1.14-3 [118 kB] Get: 269 http://deb.debian.org/debian bullseye/main amd64 libxcb-shm0 amd64 1.14-3 [101 kB] Get: 270 http://deb.debian.org/debian bullseye/main amd64 libxdamage1 amd64 1:1.1.5-2 [15.7 kB] Get: 271 http://deb.debian.org/debian bullseye/main amd64 libxfixes3 amd64 1:5.0.3-2 [22.1 kB] Get: 272 http://deb.debian.org/debian bullseye/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get: 273 http://deb.debian.org/debian bullseye/main amd64 libz3-4 amd64 4.8.10-1 [6949 kB] Get: 274 http://deb.debian.org/debian bullseye/main amd64 libllvm11 amd64 1:11.0.1-2 [17.9 MB] Get: 275 http://deb.debian.org/debian bullseye/main amd64 libsensors-config all 1:3.6.0-7 [32.3 kB] Get: 276 http://deb.debian.org/debian bullseye/main amd64 libsensors5 amd64 1:3.6.0-7 [52.3 kB] Get: 277 http://deb.debian.org/debian bullseye/main amd64 libvulkan1 amd64 1.2.162.0-1 [103 kB] Get: 278 http://deb.debian.org/debian bullseye/main amd64 libgl1-mesa-dri amd64 20.3.5-1 [9633 kB] Get: 279 http://deb.debian.org/debian bullseye/main amd64 libglx-mesa0 amd64 20.3.5-1 [186 kB] Get: 280 http://deb.debian.org/debian bullseye/main amd64 libglx0 amd64 1.3.2-1 [35.7 kB] Get: 281 http://deb.debian.org/debian bullseye/main amd64 libgl1 amd64 1.3.2-1 [89.5 kB] Get: 282 http://deb.debian.org/debian bullseye/main amd64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get: 283 http://deb.debian.org/debian bullseye/main amd64 x11proto-dev all 2020.1-1 [594 kB] Get: 284 http://deb.debian.org/debian bullseye/main amd64 libxau-dev amd64 1:1.0.9-1 [22.9 kB] Get: 285 http://deb.debian.org/debian bullseye/main amd64 libxdmcp-dev amd64 1:1.1.2-3 [42.2 kB] Get: 286 http://deb.debian.org/debian bullseye/main amd64 xtrans-dev all 1.4.0-1 [98.7 kB] Get: 287 http://deb.debian.org/debian bullseye/main amd64 libpthread-stubs0-dev amd64 0.4-1 [5344 B] Get: 288 http://deb.debian.org/debian bullseye/main amd64 libxcb1-dev amd64 1.14-3 [176 kB] Get: 289 http://deb.debian.org/debian bullseye/main amd64 libx11-dev amd64 2:1.7.2-1 [841 kB] Get: 290 http://deb.debian.org/debian bullseye/main amd64 libglx-dev amd64 1.3.2-1 [16.3 kB] Get: 291 http://deb.debian.org/debian bullseye/main amd64 libgl-dev amd64 1.3.2-1 [100 kB] Get: 292 http://deb.debian.org/debian bullseye/main amd64 libegl-dev amd64 1.3.2-1 [19.6 kB] Get: 293 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-0 amd64 2.66.8-1 [1370 kB] Get: 294 http://deb.debian.org/debian bullseye/main amd64 pkg-config amd64 0.29.2-1 [65.1 kB] Get: 295 http://deb.debian.org/debian bullseye/main amd64 libeigen3-dev all 3.3.9-2 [858 kB] Get: 296 http://deb.debian.org/debian bullseye/main amd64 libevdev2 amd64 1.11.0+dfsg-1 [34.0 kB] Get: 297 http://deb.debian.org/debian bullseye/main amd64 libfftw3-double3 amd64 3.3.8-2 [733 kB] Get: 298 http://deb.debian.org/debian bullseye/main amd64 libfftw3-long3 amd64 3.3.8-2 [319 kB] Get: 299 http://deb.debian.org/debian bullseye/main amd64 libfftw3-quad3 amd64 3.3.8-2 [558 kB] Get: 300 http://deb.debian.org/debian bullseye/main amd64 libfftw3-single3 amd64 3.3.8-2 [762 kB] Get: 301 http://deb.debian.org/debian bullseye/main amd64 libfftw3-bin amd64 3.3.8-2 [50.7 kB] Get: 302 http://deb.debian.org/debian bullseye/main amd64 libfftw3-dev amd64 3.3.8-2 [2106 kB] Get: 303 http://deb.debian.org/debian bullseye/main amd64 libgles1 amd64 1.3.2-1 [12.6 kB] Get: 304 http://deb.debian.org/debian bullseye/main amd64 libgles2 amd64 1.3.2-1 [17.7 kB] Get: 305 http://deb.debian.org/debian bullseye/main amd64 libgles-dev amd64 1.3.2-1 [50.3 kB] Get: 306 http://deb.debian.org/debian bullseye/main amd64 libopengl0 amd64 1.3.2-1 [31.5 kB] Get: 307 http://deb.debian.org/debian bullseye/main amd64 libopengl-dev amd64 1.3.2-1 [5876 B] Get: 308 http://deb.debian.org/debian bullseye/main amd64 libglvnd-dev amd64 1.3.2-1 [13.9 kB] Get: 309 http://deb.debian.org/debian bullseye/main amd64 libgl1-mesa-dev amd64 20.3.5-1 [51.1 kB] Get: 310 http://deb.debian.org/debian bullseye/main amd64 libglu1-mesa amd64 9.0.1-1 [168 kB] Get: 311 http://deb.debian.org/debian bullseye/main amd64 libglu1-mesa-dev amd64 9.0.1-1 [207 kB] Get: 312 http://deb.debian.org/debian bullseye/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get: 313 http://deb.debian.org/debian bullseye/main amd64 libgudev-1.0-0 amd64 234-1 [14.7 kB] Get: 314 http://deb.debian.org/debian bullseye/main amd64 libharfbuzz0b amd64 2.7.4-1 [1471 kB] Get: 315 http://deb.debian.org/debian bullseye/main amd64 x11-common all 1:7.7+22 [252 kB] Get: 316 http://deb.debian.org/debian bullseye/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get: 317 http://deb.debian.org/debian bullseye/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get: 318 http://deb.debian.org/debian bullseye/main amd64 libwacom-common all 1.8-2 [49.7 kB] Get: 319 http://deb.debian.org/debian bullseye/main amd64 libwacom2 amd64 1.8-2 [21.9 kB] Get: 320 http://deb.debian.org/debian bullseye/main amd64 libinput-bin amd64 1.16.4-3 [23.0 kB] Get: 321 http://deb.debian.org/debian bullseye/main amd64 libmtdev1 amd64 1.1.6-1 [23.0 kB] Get: 322 http://deb.debian.org/debian bullseye/main amd64 libinput10 amd64 1.16.4-3 [118 kB] Get: 323 http://deb.debian.org/debian bullseye/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get: 324 http://deb.debian.org/debian bullseye/main amd64 libjbig-dev amd64 2.1-3.1+b2 [30.5 kB] Get: 325 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get: 326 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo-dev amd64 1:2.0.6-4 [278 kB] Get: 327 http://deb.debian.org/debian bullseye/main amd64 libjpeg-dev amd64 1:2.0.6-4 [67.8 kB] Get: 328 http://deb.debian.org/debian bullseye/main amd64 liblapack3 amd64 3.9.0-3 [2166 kB] Get: 329 http://deb.debian.org/debian bullseye/main amd64 liblbfgsb0 amd64 3.0+dfsg.3-9 [28.5 kB] Get: 330 http://deb.debian.org/debian bullseye/main amd64 liblcms2-2 amd64 2.12~rc1-2 [150 kB] Get: 331 http://deb.debian.org/debian bullseye/main amd64 liblzma-dev amd64 5.2.5-2 [229 kB] Get: 332 http://deb.debian.org/debian bullseye/main amd64 libmd4c0 amd64 0.4.7-2 [43.6 kB] Get: 333 http://deb.debian.org/debian bullseye/main amd64 libpcre2-16-0 amd64 10.36-2 [231 kB] Get: 334 http://deb.debian.org/debian bullseye/main amd64 libpng-dev amd64 1.6.37-3 [298 kB] Get: 335 http://deb.debian.org/debian bullseye/main amd64 shared-mime-info amd64 2.0-1 [701 kB] Get: 336 http://deb.debian.org/debian bullseye/main amd64 libqt5core5a amd64 5.15.2+dfsg-9 [1822 kB] Get: 337 http://deb.debian.org/debian bullseye/main amd64 libqt5concurrent5 amd64 5.15.2+dfsg-9 [70.9 kB] Get: 338 http://deb.debian.org/debian bullseye/main amd64 libqt5dbus5 amd64 5.15.2+dfsg-9 [228 kB] Get: 339 http://deb.debian.org/debian bullseye/main amd64 libqt5network5 amd64 5.15.2+dfsg-9 [658 kB] Get: 340 http://deb.debian.org/debian bullseye/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get: 341 http://deb.debian.org/debian bullseye/main amd64 libxcb-icccm4 amd64 0.4.1-1.1 [27.4 kB] Get: 342 http://deb.debian.org/debian bullseye/main amd64 libxcb-util1 amd64 0.4.0-1+b1 [23.2 kB] Get: 343 http://deb.debian.org/debian bullseye/main amd64 libxcb-image0 amd64 0.4.0-1+b3 [24.3 kB] Get: 344 http://deb.debian.org/debian bullseye/main amd64 libxcb-keysyms1 amd64 0.4.0-1+b2 [16.4 kB] Get: 345 http://deb.debian.org/debian bullseye/main amd64 libxcb-randr0 amd64 1.14-3 [113 kB] Get: 346 http://deb.debian.org/debian bullseye/main amd64 libxcb-render0 amd64 1.14-3 [111 kB] Get: 347 http://deb.debian.org/debian bullseye/main amd64 libxcb-render-util0 amd64 0.3.9-1+b1 [18.3 kB] Get: 348 http://deb.debian.org/debian bullseye/main amd64 libxcb-shape0 amd64 1.14-3 [102 kB] Get: 349 http://deb.debian.org/debian bullseye/main amd64 libxcb-xinerama0 amd64 1.14-3 [101 kB] Get: 350 http://deb.debian.org/debian bullseye/main amd64 libxcb-xinput0 amd64 1.14-3 [126 kB] Get: 351 http://deb.debian.org/debian bullseye/main amd64 libxcb-xkb1 amd64 1.14-3 [126 kB] Get: 352 http://deb.debian.org/debian bullseye/main amd64 xkb-data all 2.29-2 [655 kB] Get: 353 http://deb.debian.org/debian bullseye/main amd64 libxkbcommon0 amd64 1.0.3-2 [101 kB] Get: 354 http://deb.debian.org/debian bullseye/main amd64 libxkbcommon-x11-0 amd64 1.0.3-2 [16.6 kB] Get: 355 http://deb.debian.org/debian bullseye/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get: 356 http://deb.debian.org/debian bullseye/main amd64 libqt5gui5 amd64 5.15.2+dfsg-9 [3320 kB] Get: 357 http://deb.debian.org/debian bullseye/main amd64 libqt5widgets5 amd64 5.15.2+dfsg-9 [2349 kB] Get: 358 http://deb.debian.org/debian bullseye/main amd64 libqt5xml5 amd64 5.15.2+dfsg-9 [147 kB] Get: 359 http://deb.debian.org/debian bullseye/main amd64 libqt5designer5 amd64 5.15.2-5 [2704 kB] Get: 360 http://deb.debian.org/debian bullseye/main amd64 libqt5sql5 amd64 5.15.2+dfsg-9 [144 kB] Get: 361 http://deb.debian.org/debian bullseye/main amd64 libqt5help5 amd64 5.15.2-5 [143 kB] Get: 362 http://deb.debian.org/debian bullseye/main amd64 libqt5opengl5 amd64 5.15.2+dfsg-9 [175 kB] Get: 363 http://deb.debian.org/debian bullseye/main amd64 libqt5printsupport5 amd64 5.15.2+dfsg-9 [222 kB] Get: 364 http://deb.debian.org/debian bullseye/main amd64 libqt5test5 amd64 5.15.2+dfsg-9 [168 kB] Get: 365 http://deb.debian.org/debian bullseye/main amd64 libvulkan-dev amd64 1.2.162.0-1 [586 kB] Get: 366 http://deb.debian.org/debian bullseye/main amd64 x11proto-xext-dev all 2020.1-1 [3404 B] Get: 367 http://deb.debian.org/debian bullseye/main amd64 libxext-dev amd64 2:1.3.3-1.1 [107 kB] Get: 368 http://deb.debian.org/debian bullseye/main amd64 qt5-qmake-bin amd64 5.15.2+dfsg-9 [1042 kB] Get: 369 http://deb.debian.org/debian bullseye/main amd64 qtchooser amd64 66-2 [26.3 kB] Get: 370 http://deb.debian.org/debian bullseye/main amd64 qt5-qmake amd64 5.15.2+dfsg-9 [249 kB] Get: 371 http://deb.debian.org/debian bullseye/main amd64 qtbase5-dev-tools amd64 5.15.2+dfsg-9 [756 kB] Get: 372 http://deb.debian.org/debian bullseye/main amd64 qtbase5-dev amd64 5.15.2+dfsg-9 [1151 kB] Get: 373 http://deb.debian.org/debian bullseye/main amd64 libqt5opengl5-dev amd64 5.15.2+dfsg-9 [78.0 kB] Get: 374 http://deb.debian.org/debian bullseye/main amd64 libsqlite3-dev amd64 3.34.1-3 [963 kB] Get: 375 http://deb.debian.org/debian bullseye/main amd64 libwebp6 amd64 0.6.1-2.1 [258 kB] Get: 376 http://deb.debian.org/debian bullseye/main amd64 libtiff5 amd64 4.2.0-1 [289 kB] Get: 377 http://deb.debian.org/debian bullseye/main amd64 libtiffxx5 amd64 4.2.0-1 [128 kB] Get: 378 http://deb.debian.org/debian bullseye/main amd64 libtiff-dev amd64 4.2.0-1 [415 kB] Get: 379 http://deb.debian.org/debian bullseye/main amd64 libwebpdemux2 amd64 0.6.1-2.1 [87.7 kB] Get: 380 http://deb.debian.org/debian bullseye/main amd64 libwebpmux3 amd64 0.6.1-2.1 [97.6 kB] Get: 381 http://deb.debian.org/debian bullseye/main amd64 python-matplotlib-data all 3.3.4-1 [4153 kB] Get: 382 http://deb.debian.org/debian bullseye/main amd64 python3-six all 1.16.0-2 [17.5 kB] Get: 383 http://deb.debian.org/debian bullseye/main amd64 python3-cycler all 0.10.0-3 [8084 B] Get: 384 http://deb.debian.org/debian bullseye/main amd64 python3-dateutil all 2.8.1-6 [79.2 kB] Get: 385 http://deb.debian.org/debian bullseye/main amd64 python3-decorator all 4.4.2-2 [15.8 kB] Get: 386 http://deb.debian.org/debian bullseye/main amd64 python3-kiwisolver amd64 1.3.1-1+b1 [55.7 kB] Get: 387 http://deb.debian.org/debian bullseye/main amd64 python3-pyparsing all 2.4.7-1 [109 kB] Get: 388 http://deb.debian.org/debian bullseye/main amd64 python3-pkg-resources all 52.0.0-4 [190 kB] Get: 389 http://deb.debian.org/debian bullseye/main amd64 python3-numpy amd64 1:1.19.5-1 [2693 kB] Get: 390 http://deb.debian.org/debian bullseye/main amd64 python3-pil amd64 8.1.2+dfsg-0.3 [445 kB] Get: 391 http://deb.debian.org/debian bullseye/main amd64 python3-matplotlib amd64 3.3.4-1 [4163 kB] Get: 392 http://deb.debian.org/debian bullseye/main amd64 python3-pyqt5.sip amd64 12.8.1-1+b2 [55.6 kB] Get: 393 http://deb.debian.org/debian bullseye/main amd64 python3-pyqt5 amd64 5.15.2+dfsg-3 [2450 kB] 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 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.) Preparing to unpack .../0-bsdextrautils_2.36.1-8_amd64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../1-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../2-groff-base_1.22.4-6_amd64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../3-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../4-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libpython3.9-minimal:amd64. Preparing to unpack .../5-libpython3.9-minimal_3.9.2-1_amd64.deb ... Unpacking libpython3.9-minimal:amd64 (3.9.2-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../6-libexpat1_2.2.10-2_amd64.deb ... Unpacking libexpat1:amd64 (2.2.10-2) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../7-python3.9-minimal_3.9.2-1_amd64.deb ... Unpacking python3.9-minimal (3.9.2-1) ... Setting up libpython3.9-minimal:amd64 (3.9.2-1) ... Setting up libexpat1:amd64 (2.2.10-2) ... Setting up python3.9-minimal (3.9.2-1) ... Selecting previously unselected package python3-minimal. (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 ... 20522 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_amd64.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package mailcap. Preparing to unpack .../2-mailcap_3.69_all.deb ... Unpacking mailcap (3.69) ... Selecting previously unselected package mime-support. Preparing to unpack .../3-mime-support_3.66_all.deb ... Unpacking mime-support (3.66) ... Selecting previously unselected package libmpdec3:amd64. Preparing to unpack .../4-libmpdec3_2.5.1-1_amd64.deb ... Unpacking libmpdec3:amd64 (2.5.1-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../6-libreadline8_8.1-1_amd64.deb ... Unpacking libreadline8:amd64 (8.1-1) ... Selecting previously unselected package libpython3.9-stdlib:amd64. Preparing to unpack .../7-libpython3.9-stdlib_3.9.2-1_amd64.deb ... Unpacking libpython3.9-stdlib:amd64 (3.9.2-1) ... Selecting previously unselected package python3.9. Preparing to unpack .../8-python3.9_3.9.2-1_amd64.deb ... Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../9-libpython3-stdlib_3.9.2-3_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.9.2-3) ... Setting up python3-minimal (3.9.2-3) ... Selecting previously unselected package python3. (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 ... 20967 files and directories currently installed.) Preparing to unpack .../000-python3_3.9.2-3_amd64.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../001-libncurses6_6.2+20201114-2_amd64.deb ... Unpacking libncurses6:amd64 (6.2+20201114-2) ... Selecting previously unselected package libprocps8:amd64. Preparing to unpack .../002-libprocps8_2%3a3.3.17-5_amd64.deb ... Unpacking libprocps8:amd64 (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a3.3.17-5_amd64.deb ... Unpacking procps (2:3.3.17-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../005-libmagic-mgc_1%3a5.39-3_amd64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../006-libmagic1_1%3a5.39-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../007-file_1%3a5.39-3_amd64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../008-gettext-base_0.21-4_amd64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libmd0:amd64. Preparing to unpack .../009-libmd0_1.0.3-3_amd64.deb ... Unpacking libmd0:amd64 (1.0.3-3) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../010-libbsd0_0.11.3-1_amd64.deb ... Unpacking libbsd0:amd64 (0.11.3-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../011-libedit2_3.1-20191231-2+b1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20191231-2+b1) ... Selecting previously unselected package libcbor0:amd64. Preparing to unpack .../012-libcbor0_0.5.0+dfsg-2_amd64.deb ... Unpacking libcbor0:amd64 (0.5.0+dfsg-2) ... Selecting previously unselected package libfido2-1:amd64. Preparing to unpack .../013-libfido2-1_1.6.0-2_amd64.deb ... Unpacking libfido2-1:amd64 (1.6.0-2) ... Selecting previously unselected package openssh-client. Preparing to unpack .../014-openssh-client_1%3a8.4p1-5_amd64.deb ... Unpacking openssh-client (1:8.4p1-5) ... Selecting previously unselected package ucf. Preparing to unpack .../015-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../016-libsigsegv2_2.13-1_amd64.deb ... Unpacking libsigsegv2:amd64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../017-m4_1.4.18-5_amd64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../018-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../019-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../020-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../021-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package clustalw. Preparing to unpack .../022-clustalw_2.1+lgpl-7_amd64.deb ... Unpacking clustalw (2.1+lgpl-7) ... Selecting previously unselected package cmake-data. Preparing to unpack .../023-cmake-data_3.18.4-2+deb11u1_all.deb ... Unpacking cmake-data (3.18.4-2+deb11u1) ... Selecting previously unselected package libicu67:amd64. Preparing to unpack .../024-libicu67_67.1-7_amd64.deb ... Unpacking libicu67:amd64 (67.1-7) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../025-libxml2_2.9.10+dfsg-6.7_amd64.deb ... Unpacking libxml2:amd64 (2.9.10+dfsg-6.7) ... Selecting previously unselected package libarchive13:amd64. Preparing to unpack .../026-libarchive13_3.4.3-2+b1_amd64.deb ... Unpacking libarchive13:amd64 (3.4.3-2+b1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../027-libbrotli1_1.0.9-2+b2_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../028-libsasl2-modules-db_2.1.27+dfsg-2.1_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../029-libsasl2-2_2.1.27+dfsg-2.1_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../030-libldap-2.4-2_2.4.57+dfsg-3_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.57+dfsg-3) ... Selecting previously unselected package libnghttp2-14:amd64. 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Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package 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 dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3 dh_clean debian/rules binary dh binary --with python3 dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/openstructure-2.2.0' dh_auto_configure -- -DUBUNTU_LAYOUT=ON cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DUBUNTU_LAYOUT=ON .. -- The CXX compiler identification is GNU 10.2.1 -- The C compiler identification is GNU 10.2.1 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of void* -- Check size of void* - done -- Found Python: /usr/bin/python3.9 (found suitable version "3.9.2", minimum required is "3.6") found components: Interpreter Development Development.Module Development.Embed CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:955 (find_package) CMakeLists.txt:198 (setup_boost) -- Found Boost package: python39 CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:969 (find_package) CMakeLists.txt:198 (setup_boost) -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: unit_test_framework CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:976 (find_package) CMakeLists.txt:198 (setup_boost) CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:976 (find_package) CMakeLists.txt:198 (setup_boost) -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: filesystem system CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:980 (find_package) CMakeLists.txt:198 (setup_boost) CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:980 (find_package) CMakeLists.txt:198 (setup_boost) -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: iostreams regex CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:983 (find_package) CMakeLists.txt:198 (setup_boost) -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: program_options CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:986 (find_package) CMakeLists.txt:198 (setup_boost) -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: regex CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:989 (find_package) CMakeLists.txt:198 (setup_boost) CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:989 (find_package) CMakeLists.txt:198 (setup_boost) CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:989 (find_package) CMakeLists.txt:198 (setup_boost) CMake Warning at /usr/share/cmake-3.18/Modules/FindBoost.cmake:1187 (message): New Boost version may have incorrect or missing dependencies and imported targets Call Stack (most recent call first): /usr/share/cmake-3.18/Modules/FindBoost.cmake:1311 (_Boost_COMPONENT_DEPENDENCIES) /usr/share/cmake-3.18/Modules/FindBoost.cmake:1919 (_Boost_MISSING_DEPENDENCIES) cmake_support/OST.cmake:989 (find_package) CMakeLists.txt:198 (setup_boost) -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: thread chrono date_time atomic -- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Found PNG: /usr/lib/x86_64-linux-gnu/libpng.so (found version "1.6.37") -- Found EIGEN: /usr/include/eigen3 (Required is at least version "3.2.0") -- Found SQLITE3: /usr/lib/x86_64-linux-gnu/libsqlite3.so (Required is at least version "3.7.13") -- Found FFTW: /usr/lib/x86_64-linux-gnu/libfftw3f.so -- Found TIFF: /usr/lib/x86_64-linux-gnu/libtiff.so (found version "4.2.0") -- Searching for python module PyQt5 for /usr/bin/python3.9 -- Found python module PyQt5 -- Searching for python module PyQt5.sip for /usr/bin/python3.9 -- Found python module PyQt5.sip -- OpenStructure will be built with the following options: Install Prefix (-DPREFIX) : /usr RPath in install (-DUSE_RPATH) : OFF Info support (-DENABLE_INFO) : ON Graphical interface (-DENABLE_GUI) : ON OpenGL support (-DENABLE_GFX) : ON Image Processing support (-DENABLE_IMG) : ON Shader support (-DUSE_SHADER) : OFF Numpy support (-DUSE_NUMPY) : OFF SpaceNav Device support (-DENABLE_SPNAV) : OFF OpenMM support (-DENABLE_MM) : OFF OpenMM plugins (-DOPEN_MM_PLUGIN_DIR) : NONE Optimize (-DOPTIMIZE) : OFF Profiling support (-DPROFILE) : OFF Double Precision (-DUSE_DOUBLE_PRECISION) : OFF Compound Lib (-DCOMPOUND_LIB) : NONE TMAlign and TMScore (-DCOMPILE_TMTOOLS) : OFF Static Libraries (-DENABLE_STATIC) : OFF Debian/Ubuntu directory layout (-DUBUNTU_LAYOUT) : ON Hidden object visibility (-DHIDDEN_VISIBILITY) : OFF -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- 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 -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[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/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' 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/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]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' 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/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/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[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/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 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/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/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/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/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/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[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 && /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 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]: 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' [ 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 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]: 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/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 [ 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 [ 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 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= 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 && /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 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/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 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= 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/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 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/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". 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/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 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/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". 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/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' 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 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 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[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/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' 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 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 && /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 && /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[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[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/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/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]: 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= 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 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". Scanning dependencies of target subst_ost 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' make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 0%] Built target ost_seq_pymod 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/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 modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend 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 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' [ 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/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 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/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= 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[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/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 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 [ 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 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 make -f modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build.make modules/base/pymod/CMakeFiles/ost_base_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/./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 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/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 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/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 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/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/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 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 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/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 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". Scanning dependencies of target ost_seq_alg_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 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 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 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 && /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' 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/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 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/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= 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 [ 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 cd /build/openstructure-2.2.0/obj-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 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/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= 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/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_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 make[3]: 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/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/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/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 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 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/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/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/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/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/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/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/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/./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/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/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_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 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/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/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/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/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/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/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/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/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_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/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/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 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/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/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/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/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/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/./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/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/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/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/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/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/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/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/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/./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/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/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/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/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 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/./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.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/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 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/./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/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/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 make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' 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/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/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/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/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 [ 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 [ 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 [ 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/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 [ 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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/./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/./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/./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/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/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/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/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/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/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/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/./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/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/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/./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/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/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/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/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/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 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/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/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/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/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/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/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/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/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 cd /build/openstructure-2.2.0/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/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 cd /build/openstructure-2.2.0/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/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/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/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/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_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/./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/./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/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/./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/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/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/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/./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/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/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 cd /build/openstructure-2.2.0/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/./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/./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/./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/./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/./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/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/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_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/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_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_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/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_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/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 cd /build/openstructure-2.2.0/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 cd /build/openstructure-2.2.0/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_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 cd /build/openstructure-2.2.0/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 cd /build/openstructure-2.2.0/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 cd /build/openstructure-2.2.0/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 cd /build/openstructure-2.2.0/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 cd /build/openstructure-2.2.0/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[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 1%] Built target ost_gui_headers [ 1%] Linking CXX shared library ../../../stage/lib/libost_geom.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /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 -Wl,-soname,libost_geom.so.2.2 -o ../../../stage/lib/libost_geom.so.2.2.0 CMakeFiles/ost_geom.dir/mat2.cc.o CMakeFiles/ost_geom.dir/mat3.cc.o CMakeFiles/ost_geom.dir/mat4.cc.o CMakeFiles/ost_geom.dir/vec3.cc.o CMakeFiles/ost_geom.dir/vecmat2_op.cc.o CMakeFiles/ost_geom.dir/vecmat3_op.cc.o CMakeFiles/ost_geom.dir/vecmat4_op.cc.o CMakeFiles/ost_geom.dir/composite2.cc.o CMakeFiles/ost_geom.dir/composite3.cc.o CMakeFiles/ost_geom.dir/composite2_op.cc.o CMakeFiles/ost_geom.dir/composite3_op.cc.o CMakeFiles/ost_geom.dir/quat.cc.o CMakeFiles/ost_geom.dir/transform.cc.o CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o CMakeFiles/ost_geom.dir/point_cloud.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_filesystem.so /usr/lib/x86_64-linux-gnu/libboost_system.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/geom/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_geom.so.2.2.0 ../../../stage/lib/libost_geom.so.2.2 ../../../stage/lib/libost_geom.so 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[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 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 make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 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 [ 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 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/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 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 [ 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 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.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_composite2.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3.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.cc.o -c /build/openstructure-2.2.0/modules/geom/pymod/export_composite3.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2_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_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 cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_base.so.2.2.0 ../../../stage/lib/libost_base.so.2.2 ../../../stage/lib/libost_base.so make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 3%] Built target ost_base make -f modules/info/src/CMakeFiles/ost_info.dir/build.make modules/info/src/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/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= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/ost_info.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src/CMakeFiles/ost_info.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.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/src/CMakeFiles/ost_info.dir/build.make modules/info/src/CMakeFiles/ost_info.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_impl.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_impl.cc.o -c /build/openstructure-2.2.0/modules/info/src/info_impl.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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/geom/pymod/export_vec3.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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/geom/pymod/export_vec4.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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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, 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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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, 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/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/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 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/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, 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/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 5%] Linking CXX shared library ../../../stage/lib/libost_info.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_info.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_info.so.2.2 -o ../../../stage/lib/libost_info.so.2.2.0 CMakeFiles/ost_info.dir/info_impl.cc.o CMakeFiles/ost_info.dir/info_handle.cc.o CMakeFiles/ost_info.dir/info_group.cc.o CMakeFiles/ost_info.dir/info_item.cc.o CMakeFiles/ost_info.dir/info_path.cc.o CMakeFiles/ost_info.dir/info_set.cc.o CMakeFiles/ost_info.dir/info_visitor.cc.o CMakeFiles/ost_info.dir/geom_info_conversion.cc.o CMakeFiles/ost_info.dir/info_verbose_visitor.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_regex.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2 /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2 ../../../stage/lib/libost_base.so.2.2.0 /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_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/info/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_info.so.2.2.0 ../../../stage/lib/libost_info.so.2.2 ../../../stage/lib/libost_info.so 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 -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= 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/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 [ 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.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 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 [ 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/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 [ 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 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_op.cc.o -c /build/openstructure-2.2.0/modules/img/base/src/mask_op.cc [ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/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/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/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 [ 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 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 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/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/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 [ 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 [ 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( | ^~~~~~~~~~~~~~~~~~~~ /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 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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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, 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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 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_state.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/query_state.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_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/residue_base.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/residue_base.cc [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_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/residue_handle.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/residue_handle.cc [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_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/residue_view.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/residue_view.cc [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_builder.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_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 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( | ^~~~~~~~~~~~~~~~~~~~ [ 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 make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/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/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= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/src/CMakeFiles/ost_img_alg.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.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.dir/depend.internal". Scanning dependencies of target ost_img_alg make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build 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 [ 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/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 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/log_sink.hh:29, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/log.hh:25, from /build/openstructure-2.2.0/modules/mol/base/src/impl/atom_impl.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( | ^~~~~~~~~~~~~~~~~~~~ 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/log_sink.hh:29, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/log.hh:25, from /build/openstructure-2.2.0/modules/mol/base/src/impl/chain_impl.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( | ^~~~~~~~~~~~~~~~~~~~ [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_ast.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/query_ast.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/query_ast.cc [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_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/query_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/query_impl.cc [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/residue_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/residue_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/residue_impl.cc [ 16%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/surface_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/surface_impl.cc.o -c /build/openstructure-2.2.0/modules/mol/base/src/impl/surface_impl.cc [ 16%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/torsion_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/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/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, 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/log_sink.hh:29, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/log.hh:25, from /build/openstructure-2.2.0/modules/mol/base/src/impl/residue_impl.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( | ^~~~~~~~~~~~~~~~~~~~ [ 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 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/fourier_filters.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/fourier_filters.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian.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/gaussian.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/gaussian.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.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/gaussian_gradient_magnitude.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/gaussian_gradient_magnitude.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_laplacian.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/gaussian_laplacian.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/gaussian_laplacian.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.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/highest_peak_search_3d.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/highest_peak_search_3d.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/histogram.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/histogram.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/histogram.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_iterator.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_iterator.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/line_iterator.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/local_sigma_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/local_sigma_threshold.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/local_sigma_threshold.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/mask_image.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/mask_image.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/mask_image.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer.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/normalizer.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/normalizer.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer_factory.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/normalizer_factory.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/normalizer_factory.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_linear.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/norm_linear.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/norm_linear.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_log.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/norm_log.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/norm_log.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_od.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/norm_od.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/norm_od.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/power_spectrum.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/power_spectrum.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/power_spectrum.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/randomize.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/randomize.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/randomize.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/smooth_mask_image.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/smooth_mask_image.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/smooth_mask_image.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/stat.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/stat.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/stat.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/stat_min_max.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/stat_min_max.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/stat_min_max.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_transform.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_transform.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/alg_transform.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_mirror.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_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 [ 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/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/discrete_shrink.cc.o -c /build/openstructure-2.2.0/modules/img/alg/src/discrete_shrink.cc [ 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 [ 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 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 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.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". 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/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' [ 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/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 [ 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 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 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 [ 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 [ 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 [ 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 [ 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( | ^~~~~~~~~~~~~~~~~~~~ [ 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, 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/info/pymod/wrap_info.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_seq.so.2.2.0 ../../../../stage/lib/libost_seq.so.2.2 ../../../../stage/lib/libost_seq.so 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 -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/depend 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 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[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/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/db/src/CMakeFiles/ost_db.dir/sqlite_wrap.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/sqlite_wrap.cc.o -c /build/openstructure-2.2.0/modules/db/src/sqlite_wrap.cc [ 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 [ 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 [ 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 [ 24%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/distance_map.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/distance_map.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/distance_map.cc [ 24%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/entropy.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/entropy.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/entropy.cc [ 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 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 [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/pair_subst_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/pair_subst_weight_matrix.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/pair_subst_weight_matrix.cc [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/semiglobal_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/semiglobal_align.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/semiglobal_align.cc [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/sequence_identity.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/sequence_identity.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/sequence_identity.cc [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/sequence_similarity.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/sequence_similarity.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/sequence_similarity.cc [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/subst_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/subst_weight_matrix.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/src/subst_weight_matrix.cc [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/variance_map.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/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 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 make -f modules/conop/src/CMakeFiles/ost_conop.dir/build.make modules/conop/src/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/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= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/conop/src/CMakeFiles/ost_conop.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.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/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 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 [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/minimal_compound_lib.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/minimal_compound_lib.cc.o -c /build/openstructure-2.2.0/modules/conop/src/minimal_compound_lib.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib_base.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/compound_lib_base.cc.o -c /build/openstructure-2.2.0/modules/conop/src/compound_lib_base.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/heuristic.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/heuristic.cc.o -c /build/openstructure-2.2.0/modules/conop/src/heuristic.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/diag.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/diag.cc.o -c /build/openstructure-2.2.0/modules/conop/src/diag.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/rule_based.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/rule_based.cc.o -c /build/openstructure-2.2.0/modules/conop/src/rule_based.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/model_check.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/model_check.cc.o -c /build/openstructure-2.2.0/modules/conop/src/model_check.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/compound.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/compound.cc.o -c /build/openstructure-2.2.0/modules/conop/src/compound.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib.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/compound_lib.cc.o -c /build/openstructure-2.2.0/modules/conop/src/compound_lib.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/ring_finder.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/ring_finder.cc.o -c /build/openstructure-2.2.0/modules/conop/src/ring_finder.cc [ 28%] Linking CXX shared library ../../../../stage/lib/libost_seq_alg.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/seq/alg/src && /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 -Wl,-soname,libost_seq_alg.so.2.2 -o ../../../../stage/lib/libost_seq_alg.so.2.2.0 CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o CMakeFiles/ost_seq_alg.dir/conservation.cc.o CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o CMakeFiles/ost_seq_alg.dir/distance_map.cc.o CMakeFiles/ost_seq_alg.dir/entropy.cc.o CMakeFiles/ost_seq_alg.dir/global_align.cc.o CMakeFiles/ost_seq_alg.dir/ins_del.cc.o CMakeFiles/ost_seq_alg.dir/local_align.cc.o CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o CMakeFiles/ost_seq_alg.dir/sequence_similarity.cc.o CMakeFiles/ost_seq_alg.dir/subst_weight_matrix.cc.o CMakeFiles/ost_seq_alg.dir/variance_map.cc.o CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o CMakeFiles/ost_seq_alg.dir/hmm_score.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/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/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_seq_alg.so.2.2.0 ../../../../stage/lib/libost_seq_alg.so.2.2 ../../../../stage/lib/libost_seq_alg.so make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 28%] Built target ost_seq_alg [ 28%] Linking CXX shared library ../../../stage/lib/libost_bindings.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/bindings/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_bindings.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_bindings.so.2.2 -o ../../../stage/lib/libost_bindings.so.2.2.0 CMakeFiles/ost_bindings.dir/wrap_tmalign.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 ../../../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/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_bindings.so.2.2.0 ../../../stage/lib/libost_bindings.so.2.2 ../../../stage/lib/libost_bindings.so make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 28%] Built target ost_bindings [ 28%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/info/_ost_info.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_info.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/info/_ost_info.so CMakeFiles/_ost_info.dir/wrap_info.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 /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_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 cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/info/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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__.pyc\",\"__init__.py\",doraise=True)" 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 -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= 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 [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o [ 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 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 [ 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_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 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 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 [ 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, 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_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, 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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, 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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_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( | ^~~~~~~~~~~~~~~~~~~~ /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: /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_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( | ^~~~~~~~~~~~~~~~~~~~ /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_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( | ^~~~~~~~~~~~~~~~~~~~ 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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ /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_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( | ^~~~~~~~~~~~~~~~~~~~ /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_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( | ^~~~~~~~~~~~~~~~~~~~ /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/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/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, 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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_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". 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 make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/bitmap_io.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/bitmap_io.cc.o -c /build/openstructure-2.2.0/modules/gfx/src/bitmap_io.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/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/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( | ^~~~~~~~~~~~~~~~~~~~ [ 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, 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/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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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_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, 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/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/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= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/img/alg/pymod/CMakeFiles/_ost_img_alg.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.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.dir/depend.internal". Scanning dependencies of target _ost_img_alg 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' [ 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 [ 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, 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/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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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( | ^~~~~~~~~~~~~~~~~~~~ /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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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, 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/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/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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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' 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ /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 [ 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/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/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 [ 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 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 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 [ 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, 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/format/alt_sstream.hpp:22, from /usr/include/boost/format/internals.hpp:24, from /usr/include/boost/format.hpp:38, from /build/openstructure-2.2.0/modules/io/src/mol/sdf_writer.hh:33, from /build/openstructure-2.2.0/modules/io/src/mol/sdf_writer.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( | ^~~~~~~~~~~~~~~~~~~~ [ 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 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/mmcif_reader.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/mmcif_reader.cc [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_info.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/mmcif_info.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/mmcif_info.cc [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_str.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_str.cc.o -c /build/openstructure-2.2.0/modules/io/src/mol/pdb_str.cc [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/stereochemical_params_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/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 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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 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/pir_io_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/seq/pir_io_handler.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/promod_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/promod_io_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/seq/promod_io_handler.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/hhm_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/hhm_io_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/seq/hhm_io_handler.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/pssm_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/pssm_io_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/seq/pssm_io_handler.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/load_map.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/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_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 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_nanoscope_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_nanoscope_handler.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_png_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_png_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_png_handler.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_df3_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_df3_handler.cc.o -c /build/openstructure-2.2.0/modules/io/src/img/map_io_df3_handler.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/image_format.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/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 [ 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, 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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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%] 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( | ^~~~~~~~~~~~~~~~~~~~ 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/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 48%] Linking CXX shared library ../../../stage/lib/libost_io.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_io.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_io.so.2.2 -o ../../../stage/lib/libost_io.so.2.2.0 CMakeFiles/ost_io.dir/io_manager.cc.o CMakeFiles/ost_io.dir/convert.cc.o CMakeFiles/ost_io.dir/io_utils.cc.o CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o CMakeFiles/ost_io.dir/mol/save_entity.cc.o CMakeFiles/ost_io.dir/mol/load_entity.cc.o CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o CMakeFiles/ost_io.dir/mol/load_surface.cc.o CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o CMakeFiles/ost_io.dir/mol/io_profile.cc.o CMakeFiles/ost_io.dir/mol/dcd_io.cc.o CMakeFiles/ost_io.dir/mol/star_parser.cc.o CMakeFiles/ost_io.dir/mol/mmcif_reader.cc.o CMakeFiles/ost_io.dir/mol/mmcif_info.cc.o CMakeFiles/ost_io.dir/mol/pdb_str.cc.o CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o CMakeFiles/ost_io.dir/seq/load.cc.o CMakeFiles/ost_io.dir/seq/save.cc.o CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o CMakeFiles/ost_io.dir/seq/promod_io_handler.cc.o CMakeFiles/ost_io.dir/seq/hhm_io_handler.cc.o CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o CMakeFiles/ost_io.dir/img/load_map.cc.o CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o CMakeFiles/ost_io.dir/img/image_format.cc.o CMakeFiles/ost_io.dir/img/tiff_util.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 ../../../stage/lib/libost_img_alg.so.2.2.0 /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 ../../../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.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 ../../../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/io/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_io.so.2.2.0 ../../../stage/lib/libost_io.so.2.2 ../../../stage/lib/libost_io.so make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 48%] Built target ost_io make -f modules/conop/src/CMakeFiles/chemdict_tool.dir/build.make modules/conop/src/CMakeFiles/chemdict_tool.dir/depend make -f modules/gui/src/CMakeFiles/ost_gui.dir/build.make modules/gui/src/CMakeFiles/ost_gui.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/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/chemdict_tool.dir/DependInfo.cmake --color= make -f modules/io/tests/CMakeFiles/test_mae_standalone.dir/build.make modules/io/tests/CMakeFiles/test_mae_standalone.dir/depend make -f modules/mol/alg/src/CMakeFiles/lddt.dir/build.make modules/mol/alg/src/CMakeFiles/lddt.dir/depend make -f tools/molck/CMakeFiles/molck.dir/build.make tools/molck/CMakeFiles/molck.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/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= 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". 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 Scanning dependencies of target lddt make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Scanning dependencies of target molck 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 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 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 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 [ 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 [ 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 [ 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 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 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_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 [ 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_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 [ 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 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/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 [ 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 [ 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_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 [ 53%] Generating sequence_viewer/moc_seq_selection_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_selection_painter.cpp_parameters [ 53%] Generating sequence_viewer/moc_seq_text_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_text_painter.cpp_parameters [ 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 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 [ 53%] Generating sequence_viewer/moc_sequence_table_view.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_table_view.cpp_parameters [ 53%] Generating sequence_viewer/moc_sequence_viewer.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_viewer.cpp_parameters [ 53%] Generating sequence_viewer/moc_tick_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_tick_painter.cpp_parameters [ 55%] Generating sequence_viewer/moc_title_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_title_row.cpp_parameters [ 55%] Generating sequence_viewer/moc_alignment_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_alignment_view_object.cpp_parameters [ 55%] Generating sequence_viewer/moc_base_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_base_view_object.cpp_parameters [ 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 [ 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_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_python_completer.cpp_parameters [ 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 [ 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 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 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 [ 56%] Generating panels/moc_button_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_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_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 [ 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_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_panel_widget_container.cpp_parameters [ 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 [ 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 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_label_node.cpp_parameters [ 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_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 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 [ 60%] Generating scene_win/moc_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_scene_node.cpp_parameters [ 60%] Generating scene_win/moc_scene_win.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_scene_win.cpp_parameters [ 60%] Generating scene_win/moc_scene_win_model.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_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%] 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 [ 60%] Generating tools/moc_tool_options.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 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 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 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 [ 61%] Generating data_viewer/moc_null_overlay.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_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 && /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= 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". 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]: 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 cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -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 cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -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 [ 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_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 [ 62%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_perspective.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_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 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 [ 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 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); | ^ 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/obj-x86_64-linux-gnu/modules/gui/src/../../../../modules/gui/src/dock_widget.hh:31, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_dock_widget.cpp:10: /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) {} | ^~~~~~ [ 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); | ^ 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/modules/gui/src/../../../../modules/gui/src/main_window.hh:35, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_main_window.cpp:10: /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) {} | ^~~~~~ [ 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 [ 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, 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/modules/gui/src/../../../../modules/gui/src/main.hh:23, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_main.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( | ^~~~~~~~~~~~~~~~~~~~ [ 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, 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/modules/gui/src/../../../../modules/gui/src/gosty_app.hh:28, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/moc_gosty_app.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -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_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_painter.cpp [ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_secstr_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_secstr_row.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_secstr_row.cpp [ 64%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_secstr_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_secstr_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp [ 64%] 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 [ 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 /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp [ 64%] 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 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-isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -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 [ 65%] 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 [ 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 make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 65%] Built target lddt [ 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 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 [ 65%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_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_tick_painter.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/sequence_viewer/moc_tick_painter.cpp [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 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 [ 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 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-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_bar.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/panels/moc_button_bar.cpp [ 67%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_drop_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 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/usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -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 [ 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 [ 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, 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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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: /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_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, 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/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: /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/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, 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/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/../../../../../modules/gui/src/python_shell/text_logger.hh:26, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_text_logger.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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/../../../../../modules/gui/src/python_shell/python_shell_widget.hh:28, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_python_shell_widget.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/transition.hh:23, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_transition.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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/../../../../../modules/gui/src/python_shell/transition_guard.hh:24, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/python_shell/moc_transition_guard.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 [ 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 [ 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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 [ 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 [ 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 [ 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 [ 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 -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -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_pointlist_overlay_base.cpp.o -c /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/thin_splitter.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/thin_splitter.cc.o -c /build/openstructure-2.2.0/modules/gui/src/thin_splitter.cc [ 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 [ 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 [ 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 [ 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: /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/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: /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) {} | ^~~~~~ [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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/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); | ^ 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/modules/gui/src/main_window.hh:35, from /build/openstructure-2.2.0/modules/gui/src/main_window.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:26: /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/qmainwindow.h:43, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QMainWindow:1, from /build/openstructure-2.2.0/modules/gui/src/main_window.hh:35, from /build/openstructure-2.2.0/modules/gui/src/main_window.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) {} | ^~~~~~ /build/openstructure-2.2.0/modules/gui/src/main_window.cc: In member function 'void ost::gui::MainWindow::AddDockWidget(QWidget*, const QString&, bool, int)': /build/openstructure-2.2.0/modules/gui/src/main_window.cc:60:47: warning: 'constexpr QFlags::QFlags(QFlags::Zero) [with Enum = Qt::WindowType; QFlags::Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 60 | DockWidget* dock = new DockWidget(name, this); | ^ 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/modules/gui/src/main_window.hh:35, from /build/openstructure-2.2.0/modules/gui/src/main_window.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) {} | ^~~~~~ /build/openstructure-2.2.0/modules/gui/src/main_window.cc:71:52: warning: 'QVariant qVariantFromValue(const T&) [with T = QDockWidget*]' is deprecated: Use QVariant::fromValue() instead. [-Wdeprecated-declarations] 71 | act->setData(qVariantFromValue((QDockWidget*)dock)); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qaction.h:47, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qmenu.h:47, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QMenu:1, from /build/openstructure-2.2.0/modules/gui/src/main_window.hh:36, from /build/openstructure-2.2.0/modules/gui/src/main_window.cc:25: /usr/include/x86_64-linux-gnu/qt5/QtCore/qvariant.h:530:17: note: declared here 530 | inline QVariant qVariantFromValue(const T &t) | ^~~~~~~~~~~~~~~~~ [ 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 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 [ 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 [ 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 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/file_browser.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 /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/main.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/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, 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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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_menu.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/messages/message_widget.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/messages/message_box_widget.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ /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(); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QDesktopWidget:1, from /build/openstructure-2.2.0/modules/gui/src/main.cc:35: /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, 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/smart_ptr/weak_ptr.hpp:17, from /usr/include/boost/smart_ptr/enable_shared_from_this.hpp:16, from /usr/include/boost/enable_shared_from_this.hpp:16, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gfx/gfx_node.hh:28, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool.hh:29, from /build/openstructure-2.2.0/modules/gui/src/gl_canvas.hh:23, from /build/openstructure-2.2.0/modules/gui/src/gl_canvas.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ /build/openstructure-2.2.0/modules/gui/src/gl_canvas.cc: In member function 'virtual void ost::gui::GLCanvas::wheelEvent(QWheelEvent*)': /build/openstructure-2.2.0/modules/gui/src/gl_canvas.cc:488:51: warning: 'int QWheelEvent::delta() const' is deprecated: Use angleDelta() [-Wdeprecated-declarations] 488 | 0.2*static_cast(-event->delta())); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtGui/QMouseEvent:1, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/mouse_event.hh:25, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.2.0/modules/gui/src/gl_canvas.hh:23, from /build/openstructure-2.2.0/modules/gui/src/gl_canvas.cc:22: /usr/include/x86_64-linux-gnu/qt5/QtGui/qevent.h:219:16: note: declared here 219 | inline int delta() const { return qt4D; } | ^~~~~ [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 [ 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 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 [ 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 [ 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 [ 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'); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtGui/qpainter.h:59, from /usr/include/x86_64-linux-gnu/qt5/QtGui/QPainter:1, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/painter.hh:30, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_row.hh:27, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/base_view_object.hh:27, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_model.hh:35, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_delegate.hh:28, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.hh:29, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.cc:25: /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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 [ 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 [ 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 [ 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 [ 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 /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(); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtGui/QWheelEvent:1, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.hh:32, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.cc:42: /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/sequence_viewer/sequence_viewer.cc:299:26: warning: 'Qt::Orientation QWheelEvent::orientation() const' is deprecated: Use angleDelta() [-Wdeprecated-declarations] 299 | if (event->orientation() == Qt::Vertical) { | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtGui/QWheelEvent:1, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_table_view.hh:32, from /build/openstructure-2.2.0/modules/gui/src/sequence_viewer/sequence_viewer.cc:42: /usr/include/x86_64-linux-gnu/qt5/QtGui/qevent.h:222:28: note: declared here 222 | inline Qt::Orientation orientation() const { return qt4O; } | ^~~~~~~~~~~ [ 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 [ 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 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/modules/gui/src/gosty_app.hh:28, from /build/openstructure-2.2.0/modules/gui/src/gosty_app.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/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 [ 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); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtGui/QDrag:1, from /build/openstructure-2.2.0/modules/gui/src/panels/event_button.cc:22: /usr/include/x86_64-linux-gnu/qt5/QtGui/qdrag.h:79:20: note: declared here 79 | Qt::DropAction start(Qt::DropActions supportedActions = Qt::CopyAction); | ^~~~~ 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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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] 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/modules/gui/src/gosty_app.hh:28, from /build/openstructure-2.2.0/modules/gui/src/gosty_app.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) {} | ^~~~~~ 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 [ 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 [ 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 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 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/panel_bar_widget_holder.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/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: /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/file_loader.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/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 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] 42 | if(timer_.elapsed()>1000){ | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/QTime:1, from /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.hh:30, from /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.cc:25: /usr/include/x86_64-linux-gnu/qt5/QtCore/qdatetime.h:237:54: note: declared here 237 | QT_DEPRECATED_X("Use QElapsedTimer instead") int elapsed() const; | ^~~~~~~ /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.cc:46:22: warning: 'int QTime::restart()' is deprecated: Use QElapsedTimer instead [-Wdeprecated-declarations] 46 | timer_.restart(); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/QTime:1, from /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.hh:30, from /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.cc:25: /usr/include/x86_64-linux-gnu/qt5/QtCore/qdatetime.h:236:54: note: declared here 236 | QT_DEPRECATED_X("Use QElapsedTimer instead") int restart(); | ^~~~~~~ /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.cc:52:18: warning: 'void QTime::start()' is deprecated: Use QElapsedTimer instead [-Wdeprecated-declarations] 52 | timer_.start(); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/QTime:1, from /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.hh:30, from /build/openstructure-2.2.0/modules/gui/src/python_shell/output_redirector.cc:25: /usr/include/x86_64-linux-gnu/qt5/QtCore/qdatetime.h:235:55: note: declared here 235 | QT_DEPRECATED_X("Use QElapsedTimer instead") void start(); | ^~~~~ [ 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 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/tools/tool_options_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 [ 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) | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QDirModel:1, from /build/openstructure-2.2.0/modules/gui/src/python_shell/dir_model.hh:26, from /build/openstructure-2.2.0/modules/gui/src/python_shell/dir_model.cc:23: /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, 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/tools/tool_bar.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 /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/tools/manipulator.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_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 [ 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 [ 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, 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/python_shell_widget.hh:28, from /build/openstructure-2.2.0/modules/gui/src/python_shell/gutter.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 [ 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, 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/main_thread_runner.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/python_interpreter.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/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( | ^~~~~~~~~~~~~~~~~~~~ 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_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, 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_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, 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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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/python_shell_widget.hh:28, 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("") | ^~~~~~~~~~~~~~~~~~~~~~~ /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; | ^ 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/modules/gui/src/python_shell/output_redirector.hh:30, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_interpreter_worker.hh:33, 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/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) {} | ^~~~~~ [ 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 [ 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(" ")); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qwidget.h:50, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qframe.h:44, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qabstractscrollarea.h:44, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qtextedit.h:44, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qplaintextedit.h:44, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QPlainTextEdit:1, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.hh:34, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc:25: /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/python_shell/python_shell_widget.cc:79:39: warning: 'void QPlainTextEdit::setTabStopWidth(int)' is deprecated [-Wdeprecated-declarations] 79 | setTabStopWidth(2*metrics.width(" ")); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QPlainTextEdit:1, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.hh:34, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc:25: /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qplaintextedit.h:179:24: note: declared here 179 | QT_DEPRECATED void setTabStopWidth(int width); | ^~~~~~~~~~~~~~~ /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc: In member function 'void ost::gui::PythonShellWidget::SetTabWidth(int)': /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc:537:47: warning: 'int QFontMetrics::width(const QString&, int) const' is deprecated: Use QFontMetrics::horizontalAdvance [-Wdeprecated-declarations] 537 | setTabStopWidth(tab_width_*metrics.width(" ")); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qwidget.h:50, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qframe.h:44, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qabstractscrollarea.h:44, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qtextedit.h:44, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qplaintextedit.h:44, from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QPlainTextEdit:1, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.hh:34, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc:25: /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/python_shell/python_shell_widget.cc:537:48: warning: 'void QPlainTextEdit::setTabStopWidth(int)' is deprecated [-Wdeprecated-declarations] 537 | setTabStopWidth(tab_width_*metrics.width(" ")); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QPlainTextEdit:1, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.hh:34, from /build/openstructure-2.2.0/modules/gui/src/python_shell/python_shell_widget.cc:25: /usr/include/x86_64-linux-gnu/qt5/QtWidgets/qplaintextedit.h:179:24: note: declared here 179 | QT_DEPRECATED void setTabStopWidth(int width); | ^~~~~~~~~~~~~~~ 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, from /build/openstructure-2.2.0/modules/gui/src/python_shell/state.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/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/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/transition.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/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, 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/transition_guard.hh:24, from /build/openstructure-2.2.0/modules/gui/src/python_shell/transition_guard.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/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 [ 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 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_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, 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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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 [ 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 [ 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 [ 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 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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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_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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win_model.cc: In member function 'virtual QMimeData* ost::gui::SceneWinModel::mimeData(const QModelIndexList&) const': /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win_model.cc:231:31: warning: 'QByteArray& QByteArray::append(const QString&)' is deprecated: Use QString's toUtf8(), toLatin1() or toLocal8Bit() [-Wdeprecated-declarations] 231 | encoded_data.append(text); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/qobject.h:47, from /usr/include/x86_64-linux-gnu/qt5/QtCore/QObject:1, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_node.hh:24, from /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win_model.hh:34, from /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win_model.cc:23: /usr/include/x86_64-linux-gnu/qt5/QtCore/qstring.h:1507:20: note: declared here 1507 | inline QByteArray &QByteArray::append(const QString &s) | ^~~~~~~~~~ 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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtCore/QModelIndex:1, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_node.hh:26, from /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include/ost/gui/scene_win/scene_win_model.hh:34, from /build/openstructure-2.2.0/modules/gui/src/scene_win/scene_win.cc:26: /usr/include/x86_64-linux-gnu/qt5/QtCore/qabstractitemmodel.h:455:20: note: declared here 455 | inline QModelIndex QModelIndex::child(int arow, int acolumn) const | ^~~~~~~~~~~ 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_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, 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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ /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 [ 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 [ 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 [ 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] 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/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/data_viewer/data_viewer.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/modules/gui/src/data_viewer/data_viewer.hh:37, from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc:41: /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/data_viewer/data_viewer.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) {} | ^~~~~~ [ 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_() | ^ 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/data_viewer/data_viewer.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) {} | ^~~~~~ /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc: In member function 'void ost::img::gui::DataViewer::build(const ost::img::ImageHandle&)': /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc:315:55: warning: 'const QRect QDesktopWidget::availableGeometry(int) const' is deprecated: Use QGuiApplication::screens() [-Wdeprecated-declarations] 315 | resize(QApplication::desktop()->availableGeometry().adjusted(20,20,-20,-20).size()); | ^ In file included from /usr/include/x86_64-linux-gnu/qt5/QtWidgets/QDesktopWidget:1, from /build/openstructure-2.2.0/modules/gui/src/data_viewer/data_viewer.cc:53: /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; | ^~~~~~~~~~~~~~~~~ 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' 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 [ 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 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 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 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 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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_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 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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_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 /build/openstructure-2.2.0/modules/mol/alg/pymod/export_molck.cc [ 93%] 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 [ 93%] Linking CXX shared library ../../../stage/lib/libost_gui.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_gui.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 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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/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( | ^~~~~~~~~~~~~~~~~~~~ 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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( | ^~~~~~~~~~~~~~~~~~~~ /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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 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, 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_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, 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_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, 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_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, 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_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_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, 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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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_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, 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_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, 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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 make -f modules/gui/src/CMakeFiles/gosty.dir/build.make modules/gui/src/CMakeFiles/gosty.dir/depend make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 94%] Generating qrc_dngr.cpp cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/lib/qt5/bin/rcc --name dngr --output /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/qrc_dngr.cpp /build/openstructure-2.2.0/modules/gui/src/dngr.qrc [ 94%] Generating moc_gosty.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.cpp_parameters 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/gosty.dir/DependInfo.cmake --color= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/gosty.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src/CMakeFiles/gosty.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/gosty.dir/depend.internal". Scanning dependencies of target gosty make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/gui/src/CMakeFiles/gosty.dir/build.make modules/gui/src/CMakeFiles/gosty.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 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 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, 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/modules/gui/src/gosty.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable ../../../stage/lib/openstructure/libexec/gosty cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/gosty.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/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 cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"views.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"superpose.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"qsscoring.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"trajectory_analysis.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"structure_analysis.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"helix_kinks.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/mol/alg/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"hbond.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 97%] Built target _ost_mol_alg make -f modules/io/pymod/CMakeFiles/_ost_io.dir/build.make modules/io/pymod/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/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= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod/CMakeFiles/_ost_io.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod/CMakeFiles/_ost_io.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.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/pymod/CMakeFiles/_ost_io.dir/build.make modules/io/pymod/CMakeFiles/_ost_io.dir/build make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 97%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/wrap_io.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_io.dir/wrap_io.cc.o -c /build/openstructure-2.2.0/modules/io/pymod/wrap_io.cc [ 97%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_pdb_io.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_io.dir/export_pdb_io.cc.o -c /build/openstructure-2.2.0/modules/io/pymod/export_pdb_io.cc [ 97%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o -c /build/openstructure-2.2.0/modules/io/pymod/export_mmcif_io.cc [ 97%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_map_io.cc.o cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -fPIC -fPIC -o CMakeFiles/_ost_io.dir/export_map_io.cc.o -c /build/openstructure-2.2.0/modules/io/pymod/export_map_io.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/io/pymod/export_map_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, 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/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( | ^~~~~~~~~~~~~~~~~~~~ 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/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, 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/io/pymod/wrap_io.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 97%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/io/_ost_io.so cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_io.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/io/_ost_io.so CMakeFiles/_ost_io.dir/wrap_io.cc.o CMakeFiles/_ost_io.dir/export_pdb_io.cc.o CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o CMakeFiles/_ost_io.dir/export_map_io.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_io.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_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/io/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"remote.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/io/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"repository.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 97%] Built target _ost_io make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.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/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= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/_ost_gui.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod/CMakeFiles/_ost_gui.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.dir/depend.internal". Scanning dependencies of target _ost_gui make[3]: 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 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 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 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_gosty.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_gosty.cc [ 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 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -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 -I/build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3 -I/usr/include/python3.9 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-map=/build/openstructure-2.2.0=. -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_sequence_viewer.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_sequence_viewer.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_perspective.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_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_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 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, 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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_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( | ^~~~~~~~~~~~~~~~~~~~ /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_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, 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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_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( | ^~~~~~~~~~~~~~~~~~~~ /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_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( | ^~~~~~~~~~~~~~~~~~~~ /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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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_sip_handler.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( | ^~~~~~~~~~~~~~~~~~~~ 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_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( | ^~~~~~~~~~~~~~~~~~~~ /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/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( | ^~~~~~~~~~~~~~~~~~~~ /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_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, 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_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_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 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_widget.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_widget.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_canvas.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_canvas.cc.o -c /build/openstructure-2.2.0/modules/gui/pymod/export_gl_canvas.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/data_viewer_proxy.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/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: /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/pymod/export_gosty.cc:24: /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 /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_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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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( | ^~~~~~~~~~~~~~~~~~~~ /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 /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_gl_canvas.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/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( | ^~~~~~~~~~~~~~~~~~~~ /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_data_viewer.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/gui/pymod/export_overlay.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ 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: /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: /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/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/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) {} | ^~~~~~ [100%] Linking CXX shared module ../../../stage/lib/python3.9/dist-packages/ost/gui/_ost_gui.so 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/presets.xml /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/scene/presets.xml 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/icons/color_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/scene/icons/color_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/scene/icons/preset_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/scene/icons/preset_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/scene/icons/render_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/scene/icons/render_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/scene/icons/tool_icon.png /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/share/openstructure/scene/icons/tool_icon.png cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_gui.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/gui/_ost_gui.so CMakeFiles/_ost_gui.dir/wrap_gui.cc.o CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o CMakeFiles/_ost_gui.dir/export_message_widget.cc.o CMakeFiles/_ost_gui.dir/export_gl_win.cc.o CMakeFiles/_ost_gui.dir/export_tool.cc.o CMakeFiles/_ost_gui.dir/export_py_shell.cc.o CMakeFiles/_ost_gui.dir/export_gosty.cc.o CMakeFiles/_ost_gui.dir/export_scene_win.cc.o CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o CMakeFiles/_ost_gui.dir/export_perspective.cc.o CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o CMakeFiles/_ost_gui.dir/export_main_area.cc.o CMakeFiles/_ost_gui.dir/export_panels.cc.o CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o CMakeFiles/_ost_gui.dir/export_file_loader.cc.o CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o CMakeFiles/_ost_gui.dir/export_widget.cc.o CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o CMakeFiles/_ost_gui.dir/export_overlay.cc.o CMakeFiles/_ost_gui.dir/export_overlay_manager.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_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 cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"color_options_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"color_select_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"combo_options_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"cpk_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"custom_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"gradient_editor_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"gradient_info_handler.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"gradient_list_model.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"gradient_preset_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"hsc_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"immutable_gradient_info_handler.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"immutable_preset_info_handler.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"init_inspector.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"inspector_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"map_level_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"preset.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"remote.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"preset_editor_list_model.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"preset_editor_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"preset_info_handler.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"preset_list_model.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"preset_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"render_mode_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"render_op.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"render_options_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"scene_observer_impl.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"scene_selection_helper.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"simple_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"sline_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"toolbar_options_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"trace_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"tube_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"uniform_color_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"visibility_op.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"line_trace_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"wireframe_widget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"query_editor.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"termuse.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"superpositiondialog.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"init.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"menu.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"init_context_menu.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"init_menubar.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"init_spacenav.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"init_splash.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"trajectory_viewer.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"helpwidget.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"table.py\",doraise=True)" cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/modules/gui/pymod && /usr/bin/python3.9 -c "import py_compile;py_compile.compile(\"/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.pyc\",\"gosty_startup.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] Built target _ost_gui make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.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/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= Dependee "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/ost_scripts.dir/DependInfo.cmake" is newer than depender "/build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts/CMakeFiles/ost_scripts.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/ost_scripts.dir/depend.internal". Scanning dependencies of target ost_scripts make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.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 -E copy_if_different ost_config /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/openstructure/libexec/ost_config cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -E copy_if_different ost /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/bin/ost cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -E copy_if_different dng /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/bin/dng cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -E copy_if_different ost_startup.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/ost_startup.py 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[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] Built target ost_scripts make[2]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' /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 -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 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 /usr/bin/cmake -E cmake_progress_start /build/openstructure-2.2.0/obj-x86_64-linux-gnu/CMakeFiles 95 make -f CMakeFiles/Makefile2 CMakeFiles/check.dir/all make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_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/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= make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.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/create_stage.dir/DependInfo.cmake --color= make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.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_startup.py.dir/DependInfo.cmake --color= make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.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' make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.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_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 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]: 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' 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 [ 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[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]: 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/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]: 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[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' 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/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[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/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[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[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/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_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/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[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]: 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/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/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' 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[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/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/./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 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/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' 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 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/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/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 [ 0%] Built target ost_config_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.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/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 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/./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/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/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/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/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/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/./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/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/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/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/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 [ 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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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 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/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 [ 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/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/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/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/./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/./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/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/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/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/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/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/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 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/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/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/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 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/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/./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 [ 0%] Built target ost_geom_headers 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/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 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/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/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/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/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 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/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 make[4]: 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[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' 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' 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/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 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/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= cd /build/openstructure-2.2.0/obj-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 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 Scanning dependencies of target ost_geom_tests 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/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/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 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/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/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/./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/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/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/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/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/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 [ 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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/./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/./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/./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 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/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 [ 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/./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/./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/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/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/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/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/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/./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/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/./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/./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 cd /build/openstructure-2.2.0/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/./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 cd /build/openstructure-2.2.0/obj-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 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/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/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/./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/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/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/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/./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' make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.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/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/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 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/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 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/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 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/./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 cd /build/openstructure-2.2.0/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.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 cd /build/openstructure-2.2.0/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 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/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 cd /build/openstructure-2.2.0/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/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/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/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_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 cd /build/openstructure-2.2.0/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/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 cd /build/openstructure-2.2.0/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 cd /build/openstructure-2.2.0/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 cd /build/openstructure-2.2.0/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/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/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/./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 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= 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' [ 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 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= 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 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' [ 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= 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 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' [ 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= 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' [ 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 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' [ 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 [ 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' [ 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' [ 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= make[4]: 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[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' [ 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= make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/conop/src/CMakeFiles/ost_conop.dir/build.make modules/conop/src/CMakeFiles/ost_conop.dir/build 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' [ 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= make[4]: 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[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' [ 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= make[4]: 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[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' [ 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= make[4]: 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[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' [ 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= Scanning dependencies of target ost_conop_tests 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' [ 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 [ 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' [ 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= make[4]: 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[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build'. 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 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' [ 44%] Built target ost_gfx make -f modules/conop/pymod/CMakeFiles/_ost_conop.dir/build.make modules/conop/pymod/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/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= make[4]: 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[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'modules/conop/pymod/CMakeFiles/_ost_conop.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 45%] Built target _ost_conop make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/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/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' [ 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= make[4]: 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[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' [ 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= Scanning dependencies of target ost_gfx_tests 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' [ 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 [ 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' 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= 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' [ 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 [ 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 -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-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_transfer_connectivity.cc.o -c /build/openstructure-2.2.0/modules/mol/base/tests/test_transfer_connectivity.cc [ 55%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_view_op.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_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= Scanning dependencies of target ost_mol_alg_tests 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' [ 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 [ 55%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/tests.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 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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 [ 55%] 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 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/usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2 -fdebug-prefix-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_map_octree.cc.o -c /build/openstructure-2.2.0/modules/gfx/tests/test_map_octree.cc [ 55%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.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_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 /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.dir/DependInfo.cmake --color= Scanning dependencies of target ost_seq_alg_tests 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.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 55%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.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 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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_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o -c /build/openstructure-2.2.0/modules/seq/alg/tests/test_merge_pairwise_alignments.cc [ 56%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_crd.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_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 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-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' [ 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= make[4]: 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[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' [ 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= 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 [ 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' [ 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= make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/io/pymod/CMakeFiles/_ost_io.dir/build.make modules/io/pymod/CMakeFiles/_ost_io.dir/build 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' [ 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= Scanning dependencies of target ost_gfx_tests_run 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' [ 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 /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/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/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_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_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 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' [ 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= make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.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 -E copy_if_different ost_config /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/openstructure/libexec/ost_config cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -E copy_if_different ost /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/bin/ost cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -E copy_if_different dng /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/bin/dng cd /build/openstructure-2.2.0/obj-x86_64-linux-gnu/scripts && /usr/bin/cmake -E copy_if_different ost_startup.py /build/openstructure-2.2.0/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages//ost/ost_startup.py 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 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= Scanning dependencies of target test_weight_matrix.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' 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/build 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" Running 4 test cases... *** 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= Scanning dependencies of target test_stutil.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/base/tests/CMakeFiles/test_stutil.py_run.dir/build.make modules/base/tests/CMakeFiles/test_stutil.py_run.dir/build 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 0.096s OK make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 94%] Built target test_stutil.py_run make -f modules/base/tests/CMakeFiles/test_table.py_run.dir/build.make modules/base/tests/CMakeFiles/test_table.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_table.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_table.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/base/tests/CMakeFiles/test_table.py_run.dir/build.make modules/base/tests/CMakeFiles/test_table.py_run.dir/build 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 [ 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 [ 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= Scanning dependencies of target test_log.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/base/tests/CMakeFiles/test_log.py_run.dir/build.make modules/base/tests/CMakeFiles/test_log.py_run.dir/build 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 0.027s OK [ 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]: 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_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= 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" 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_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= Scanning dependencies of target test_blast.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/build 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" .. ---------------------------------------------------------------------- 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' [ 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 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 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 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' 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= 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_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 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_tmtools.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_tmtools.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/build 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 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= 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' 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_hbplus.py_run.dir/DependInfo.cmake --color= Scanning dependencies of target test_hbplus.py_run 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 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_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" . ---------------------------------------------------------------------- Ran 1 test in 0.151s OK 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' 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 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' ---------------------------------------------------------------------- Ran 7 tests in 6.689s OK [ 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 make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [ 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' [ 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 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= Scanning dependencies of target test_geom.py_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' 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]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' ...... ---------------------------------------------------------------------- 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 0.240s OK . ---------------------------------------------------------------------- [ 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 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= ..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 .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 0.190s 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= 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' 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 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= ..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' [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" ... ---------------------------------------------------------------------- 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' [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/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_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 make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' 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 0.116s 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_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= 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 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 0.183s 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= 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 make[4]: Entering 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%] 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) /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' [100%] Built target test_sec_struct.py_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/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= 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' . ---------------------------------------------------------------------- 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' [100%] Built target test_hbond.py_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_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' [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 0.035s OK make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' .............. ---------------------------------------------------------------------- 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= 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= 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' make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [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" .... ---------------------------------------------------------------------- Ran 3 tests in 0.002s OK . ---------------------------------------------------------------------- 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 -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 0.002s OK .[100%] Built target ost_seq_tests_run ....... ---------------------------------------------------------------------- Ran 8 tests in 0.403s OK ......s ---------------------------------------------------------------------- Ran 10 tests in 5.637s 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' Running 19 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [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' [100%] Built target test_io_mmcif.py_run .... ---------------------------------------------------------------------- Ran 9 tests in 8.090s OK make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [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' [100%] Built target test_table.py_run . ---------------------------------------------------------------------- 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 [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 make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] Built target ost_io_tests make -f modules/io/tests/CMakeFiles/ost_io_tests_run.dir/build.make modules/io/tests/CMakeFiles/ost_io_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/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_run.dir/DependInfo.cmake --color= Scanning dependencies of target ost_io_tests_run make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f modules/io/tests/CMakeFiles/ost_io_tests_run.dir/build.make modules/io/tests/CMakeFiles/ost_io_tests_run.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] running checks for module io cd /build/openstructure-2.2.0/modules/io/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_io_tests 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 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= Scanning dependencies of target check make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make -f CMakeFiles/check.dir/build.make CMakeFiles/check.dir/build make[4]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'CMakeFiles/check.dir/build'. make[4]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' [100%] Built target check make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/openstructure-2.2.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep 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 -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 make[3]: Entering directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "Debug" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_base.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_base.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_base.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_base.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/export_helper/generic_property_def.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/export_helper/pair_to_tuple_conv.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/export_helper/vec_to_list_conv.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/test_utils/compare_files.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./generic_property.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./integrity_error.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./invalid_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./ptr_observer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./log.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./log_sink.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./profile.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./dyn_cast.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./stdint.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./stdint_msc.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./range.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./units.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./message.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./platform.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./string_ref.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./pod_vector.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./fixed_string.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./tri_matrix.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./boost_filesystem_helper.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/_ost_base.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/_ost_base.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./settings.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./stutil.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./table.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./table_selector.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./xmlrunner.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./testutils.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./settings.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./stutil.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./table.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./table_selector.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./xmlrunner.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/./testutils.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_bindings.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_bindings.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_bindings.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_bindings.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/bindings/./wrap_tmalign.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/_ost_bindings.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/_ost_bindings.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./lga.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./hbplus.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./msms.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./tmtools.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./dssp.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./clustalw.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./utils.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./naccess.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./hhblits.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./hhblits2.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./hhblits3.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./blast.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./cadscore.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./kclust.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./ialign.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./lga.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./hbplus.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./msms.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./tmtools.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./dssp.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./clustalw.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./utils.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./naccess.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./hhblits.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./hhblits2.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./hhblits3.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./blast.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./cadscore.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./kclust.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/bindings/./ialign.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./dllexport.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/./version.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_conop.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_conop.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_conop.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_conop.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./conop.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./processor.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./amino_acids.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./diag.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./model_check.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./heuristic.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./compound.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./compound_lib.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./rule_based.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./minimal_compound_lib.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./compound_lib_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/conop/./ring_finder.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/bin/chemdict_tool -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/bin/chemdict_tool" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/conop/_ost_conop.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/conop/_ost_conop.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/conop/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/conop/./cleanup.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/conop/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/conop/./cleanup.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_db.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_db.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_db.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_db.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/db/./sqlite_wrap.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/db/./sqlite_conv.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/db/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/db/./linear_indexer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/db/./paged_array.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/db/./binary_container.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/db/./extract_data_helper.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/db/_ost_db.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/db/_ost_db.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/db/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/db/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_geom.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_geom.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_geom.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_geom.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/export_helper/vector.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./def.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./exc.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./geom.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./mat.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./mat2.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./mat3.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./mat4.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./vec.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./vec2.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./vec3.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./vec4.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./vecmat_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./vecmat2_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./vecmat3_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./vecmat4_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./circular_iterator.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./constants.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./composite.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./composite2.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./composite3.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./composite_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./composite2_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./composite3_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./aligned_cuboid.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./vec_mat_predicates.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./quat.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./transform.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./point_cloud.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/geom/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/geom/_ost_geom.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/geom/_ost_geom.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/geom/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/geom/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_gfx.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_gfx.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_gfx.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_gfx.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/map_iso_gen.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/map_iso_gen_s.hh -- Up-to-date: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/map_iso_gen_s.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/map_iso_spec.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/map_octree.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/octree_isocont.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/cartoon_renderer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/custom_renderer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/cpk_renderer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/debug_renderer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/simple_renderer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/sline_renderer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/trace_renderer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/line_trace_renderer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/backbone_trace.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/entity_detail.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/entity_renderer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/trace_renderer_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/connect_renderer_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/mapped_property.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/entity_renderer_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/tabulated_trig.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/impl/fast_spheres.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/render_options/render_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/render_options/line_render_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/render_options/custom_render_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/render_options/cpk_render_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/render_options/simple_render_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/render_options/sline_render_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/render_options/line_trace_render_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/render_options/cartoon_render_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/render_options/trace_render_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/color_ops/color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/color_ops/by_element_color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/color_ops/by_chain_color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/color_ops/uniform_color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/color_ops/gradient_color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/color_ops/entity_view_color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/color_ops/basic_gradient_color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/color_ops/gradient_level_color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/color_ops/map_handle_color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./render_pass.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./bitmap_io.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./collada_exporter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./color.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./entity.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./entity_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gl_helper.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx_node_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx_node_visitor.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx_object_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx_object.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx_object_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx_prim.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./symmetry_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gfx_test_object.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./glwin_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./input.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./prim_list.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./scene.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./selection.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./surface.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./texture.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./vertex_array.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./vertex_array_helper.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./scene_observer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gl_include.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./glext_include.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./render_mode.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./material.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gradient.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gradient_manager.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./primitives.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./povray_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./povray.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./exporter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./exporter_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./gost_exporter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./map_handle_color_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./map_iso.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./map_slab.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gfx/./map_iso_prop.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/textures/test_texture.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/textures/glyph_texture.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gfx/_ost_gfx.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gfx/_ost_gfx.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gfx/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gfx/./py_gfx_obj.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gfx/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gfx/./py_gfx_obj.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/scene/gradients.xml -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_gui.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_gui.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_gui.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_gui.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/tool.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/tool_option_group.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/tool_options.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/tool_bar.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/selection_tool.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/measure_tool.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/tool_option.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/tool_manager.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/tool_options_widget.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/manipulator.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/tool_options_win.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/mouse_event.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/tools/map_tool.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/align_properties_painter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/base_row.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/background_painter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/conservation_painter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/painter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/secstr_row.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/seq_secstr_painter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/seq_selection_painter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/seq_text_painter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/sequence_delegate.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/sequence_model.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/sequence_row.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/sequence_search_bar.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/sequence_table_view.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/sequence_viewer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/tick_painter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/title_row.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/alignment_view_object.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/base_view_object.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/sequence_viewer/sequence_view_object.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/main_thread_runner.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/output_redirector.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/completer_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/dir_model.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/gutter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/path_completer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_context_parser.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_completer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_shell.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_shell_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_shell_widget.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_tokenizer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_syntax_highlighter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/text_logger.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_interpreter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_interpreter_worker.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/python_shell_text_document_layout.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/shell_history.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/state_machine.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/state.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/transition.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/python_shell/transition_guard.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/button_bar.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/drop_box.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/panel_bar.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/panel_manager.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/bottom_bar.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/button_box.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/event_button.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/panel_widget_container.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/panel_bar_widget_holder.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/side_bar.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/splitter_panel_bar.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/panels/tabbed_panel_bar.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/context_menu.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/current_selection_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/custom_part_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/entity_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/entity_part_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/gfx_scene_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/label_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/root_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/render_mode_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/render_modes_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/scene_node.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/scene_win.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/scene_win/scene_win_model.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/messages/message_widget.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/messages/message_box_widget.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/messages/log_reader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/argand.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/data_viewer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/data_viewer_panel.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/data_viewer_panel_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/draw_overlay.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/drawing_functions.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/fft_panel.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/info_panel.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/img2qt.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/mask_overlay.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/null_overlay.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/overlay.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/overlay_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/overlay_base_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/overlay_manager.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/overlay_manager_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/overlay_manager_gui.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/overlay_manager_observer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/pointlist_overlay.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/pointlist_overlay_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/strategies.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/strategies_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/data_viewer/viewer_normalizer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./file_browser.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./file_type_dialog.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./file_viewer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./gl_canvas.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./gl_win.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./scene_menu.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./gosty_app.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./admin.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./main.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./main_area.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./perspective.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./scene_selection.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./main_window.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./dock_widget.hh -- Up-to-date: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./dock_widget.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./thin_splitter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./widget.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./widget_geom_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./widget_pool.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./widget_registry.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./widget_state_saver.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/gui/./file_loader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/openstructure/libexec/gosty -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/openstructure/libexec/gosty" to "$ORIGIN/../../lib" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/add_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/close_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/critical_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/delete_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/distance_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/find_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/information_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/map_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/menubar_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/rigid_body_manipulator_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/selection_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/show_sidebar_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/site_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/split_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/warning_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/icons/refresh.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/gui/images/logo-small.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/_ost_gui.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/_ost_gui.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/color_options_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/color_select_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/combo_options_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/cpk_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/custom_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/gradient_editor_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/gradient_info_handler.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/gradient_list_model.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/gradient_preset_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/hsc_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/immutable_gradient_info_handler.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/immutable_preset_info_handler.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/init_inspector.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/inspector_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/map_level_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/remote.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_editor_list_model.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_editor_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_info_handler.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_list_model.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/render_mode_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/render_op.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/render_options_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/scene_observer_impl.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/scene_selection_helper.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/simple_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/sline_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/toolbar_options_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/trace_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/tube_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/uniform_color_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/visibility_op.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/line_trace_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/wireframe_widget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/query_editor.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/color_options_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/color_select_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/combo_options_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/cpk_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/custom_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/gradient_editor_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/gradient_info_handler.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/gradient_list_model.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/gradient_preset_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/hsc_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/immutable_gradient_info_handler.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/immutable_preset_info_handler.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/init_inspector.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/inspector_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/map_level_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/remote.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_editor_list_model.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_editor_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_info_handler.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_list_model.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/preset_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/render_mode_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/render_op.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/render_options_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/scene_observer_impl.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/scene_selection_helper.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/simple_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/sline_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/toolbar_options_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/trace_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/tube_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/uniform_color_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/visibility_op.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/line_trace_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/wireframe_widget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/scene/query_editor.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/termuse.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/superpositiondialog.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/init.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/menu.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/termuse.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/superpositiondialog.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/init.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/dng/menu.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./init_context_menu.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./init_menubar.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./init_spacenav.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./init_splash.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./trajectory_viewer.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./helpwidget.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./table.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./gosty_startup.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./init_context_menu.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./init_menubar.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./init_spacenav.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./init_splash.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./trajectory_viewer.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./helpwidget.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./table.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/gui/./gosty_startup.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/scene/presets.xml -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/scene/icons/color_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/scene/icons/preset_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/scene/icons/render_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/scene/icons/tool_icon.png -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_img.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_img.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_img.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_img.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/raster_image/raster_image.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/dispatch.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_base_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_def.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_factory.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_frequency_domain.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_half_frequency_domain.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_spatial_domain.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_visitor.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_algorithm.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/image_state_visitor_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/index.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/type_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/image_state/value_holder.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./algorithm.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./circle_mask.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./composite_mask.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./data_algorithm.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./data_observer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./data_types.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./data.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./debug.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./dllexport.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./extent_iterator.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./extent_mask.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./extent.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./image_factory.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./image_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./image_handle_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./image_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./image_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./image_list.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./image_state_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./image_state.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./image.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./inverted_mask.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./map.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./mask_base_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./mask_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./mask_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./mask_visitor.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./mask.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./normalizer_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./normalizer_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./null_data.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./observable.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./paste_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./peak.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./phase.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./physical_units.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./pixel_sampling.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./point_list.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./point.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./polygon_mask.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./progress.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./size.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./spherical_mask.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./util.cc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./util.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./value_util.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./vecmat.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/./mask_info_convert.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/img/_ost_img.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/img/_ost_img.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/img/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/img/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_img_alg.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_img_alg.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_img_alg.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_img_alg.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./anisotropic.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./auto_correlate.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./clear.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./clip_min_max.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./conjugate.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./convolute.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./correlate.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./cross_correlate.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./density_slice.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./dft.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./fft.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./fftw_helper.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./fill.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./filter.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./fourier_filters.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./gaussian_gradient_magnitude.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./gaussian.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./gaussian_laplacian.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./highest_peak_search_3d.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./histogram.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./line_iterator.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./local_sigma_threshold.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./mask_image.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./negate.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./normalizer_factory.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./norm.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./normalizer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./norm_linear.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./norm_log.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./norm_od.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./power_spectrum.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./randomize.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./smooth_mask_image.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./stat.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./stat_accumulator.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./stat_min_max.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./threshold.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./transcendentals.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./transform.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./transform_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./alg_transform.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./alg_mirror.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./alg_shift.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./discrete_shrink.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./transformation_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./transformations.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./fractional_shift.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./polar.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./line_average.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/img/alg/./rscrosscorr.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/img/alg/_ost_img_alg.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/img/alg/_ost_img_alg.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/img/alg/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/img/alg/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_info.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_info.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_info.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_info.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_error.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_group.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_item.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_path.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_set.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_visitor.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./info_verbose_visitor.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./item_type.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./geom_info_conversion.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/info/./item_type_cast.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/info/_ost_info.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/info/_ost_info.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/info/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/info/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_io.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_io.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_io.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_io.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/chemdict_parser.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/star_parser.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/mmcif_reader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/mmcif_info.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/io_profile.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/dcd_io.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/entity_io_crd_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/entity_io_pqr_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/entity_io_mae_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/entity_io_mmcif_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/entity_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/pdb_reader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/entity_io_pdb_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/pdb_writer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/entity_io_sdf_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/sdf_reader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/sdf_writer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/save_entity.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/load_entity.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/surface_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/load_surface.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/surface_io_msms_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/pdb_str.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/mol/stereochemical_params_reader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/load_map.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_df3_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/image_format.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_dx_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_spi_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_situs_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_mrc_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_dat_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_ipl_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_jpk_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_nanoscope_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_png_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_dm3_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/map_io_tiff_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/tiff_util.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/img/jpk_util.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/sequence_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/fasta_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/pir_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/promod_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/profile_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/hhm_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/pssm_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/clustal_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/load.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/seq/save.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./binary_data_sink.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./io_manager.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./binary_data_source.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./container_serialization.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./swap_util.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./io_utils.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./io_exception.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./convert.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./converting_streams.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./formatted_line.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./chemdict_parser.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./star_parser.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./mmcif_reader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./mmcif_info.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./io_profile.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./dcd_io.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./entity_io_crd_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./entity_io_pqr_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./entity_io_mae_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./entity_io_mmcif_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./entity_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./pdb_reader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./entity_io_pdb_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./pdb_writer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./entity_io_sdf_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./sdf_reader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./sdf_writer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./save_entity.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./load_entity.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./surface_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./load_surface.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./surface_io_msms_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./pdb_str.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./stereochemical_params_reader.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./sequence_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./fasta_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./pir_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./promod_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./profile_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./hhm_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./pssm_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./clustal_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./load.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./save.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./load_map.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_df3_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./image_format.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_dx_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_spi_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_situs_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_mrc_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_dat_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_ipl_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_jpk_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_nanoscope_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_png_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_dm3_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./map_io_tiff_handler.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./tiff_util.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/io/./jpk_util.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/io/_ost_io.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/io/_ost_io.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/io/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/io/./remote.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/io/./repository.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/io/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/io/./remote.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/io/./repository.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_mol.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_mol.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_mol.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_mol.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/pointer_iterator.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/atom_group.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/atom_prop.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/atom_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/atom_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/chain_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/chain_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/connector_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/connector_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/dihedral.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/entity_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/entity_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/fragment_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/fragment_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/query_ast.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/query_ast_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/query_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/query_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/residue_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/residue_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/surface_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/surface_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/torsion_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/impl/torsion_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./atom_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./atom_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./atom_view.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./bond_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./bond_table.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./chain_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./chain_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./chain_view.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./chain_type.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./chem_class.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./chem_type.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./coord_group.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./coord_source.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./in_mem_coord_source.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./coord_frame.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./editor_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./editor_type_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./mol.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./entity_base.hh -- Up-to-date: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./entity_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./entity_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./entity_observer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./entity_observer_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./entity_property_mapper.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./entity_view.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./entity_visitor.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./entity_visitor_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./handle_type_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./ics_editor.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./not_connected_error.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./property_id.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./query.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./query_error.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./query_state.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./residue_base.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./residue_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./residue_prop.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./residue_view.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./sec_structure.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./spatial_organizer.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./surface.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./surface_builder.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./builder.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./surface_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./surface_prop.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./torsion_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./transfer_connectivity.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./query_view_wrapper.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./view_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./view_type_fw.hh -- Up-to-date: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./view_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./xcs_editor.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./bounding_box.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./transform.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/_ost_mol.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/_ost_mol.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/bin/lddt -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/bin/lddt" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_mol_alg.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_mol_alg.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_mol_alg.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_mol_alg.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./svd_superpose.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./sec_structure_segments.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./local_dist_diff_test.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./distance_test_common.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./distance_rmsd_test.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./superpose_frames.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./filter_clashes.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./construct_cbeta.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./clash_score.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./trajectory_analysis.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./structure_analysis.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./consistency_checks.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./pdbize.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./adjacency_bitmap.hh -- Up-to-date: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./consistency_checks.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./contact_overlap.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./domain_find.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./similarity_matrix.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./accessibility.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./sec_struct.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./nonstandard.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./molck.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./find_membrane.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/mol/alg/./entity_to_density.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/atom_scattering_properties.txt -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/share/openstructure/stereo_chemical_props.txt -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/_ost_mol_alg.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/_ost_mol_alg.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./views.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./superpose.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./qsscoring.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./trajectory_analysis.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./structure_analysis.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./helix_kinks.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./hbond.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./views.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./superpose.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./qsscoring.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./trajectory_analysis.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./structure_analysis.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./helix_kinks.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/mol/alg/./hbond.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_seq.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_seq.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_seq.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_seq.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/impl/sequence_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/impl/sequence_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/impl/sequence_list_impl_fw.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/impl/sequence_list_impl.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/impl/sequence_list_iterator.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./sequence_list.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./sequence_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./alignment_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./sequence_op.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./aligned_region.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./aligned_column.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./aligned_column_iterator.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./invalid_sequence.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./views_from_sequences.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/./profile_handle.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/_ost_seq.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/_ost_seq.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_seq_alg.so.2.2.0 -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_seq_alg.so.2.2 -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/libost_seq_alg.so.2.2.0" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/libost_seq_alg.so -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./alignment_opts.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./clip_alignment.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./conservation.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./contact_prediction_score.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./contact_weight_matrix.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./distance_map.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./entropy.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./global_align.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./ins_del.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./local_align.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./merge_pairwise_alignments.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./module_config.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./pair_subst_weight_matrix.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./semiglobal_align.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./sequence_identity.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./sequence_similarity.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./subst_weight_matrix.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./variance_map.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./default_contact_weight_matrix.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./default_pair_subst_weight_matrix.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./hmm_pseudo_counts.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/include/ost/seq/alg/./hmm_score.hh -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/alg/_ost_seq_alg.so -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/alg/_ost_seq_alg.so" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/alg/./__init__.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/alg/./mat.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/alg/./renumber.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/alg/./__init__.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/alg/./mat.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/seq/alg/./renumber.pyc -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/openstructure/libexec/ost_config -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/bin/ost -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/bin/dng -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/ost_startup.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/python3.9/dist-packages/ost/dng_startup.py -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/bin/molck -- Set runtime path of "/build/openstructure-2.2.0/debian/tmp/usr/bin/molck" to "" -- Installing: /build/openstructure-2.2.0/debian/tmp/usr/lib/openstructure/libexec/ost-compare-structures make[2]: Leaving directory '/build/openstructure-2.2.0/obj-x86_64-linux-gnu' find debian/tmp/usr/lib -name '*.pyc' | xargs --no-run-if-empty rm make[1]: Leaving directory '/build/openstructure-2.2.0' debian/rules override_dh_install make[1]: Entering directory '/build/openstructure-2.2.0' dh_install find debian/python3-ost/usr/lib/python3/dist-packages -type f \ | xargs --no-run-if-empty chmod -x make[1]: Leaving directory '/build/openstructure-2.2.0' dh_installdocs dh_installchangelogs dh_python3 I: dh_python3 fs:343: renaming _ost_base.so to _ost_base.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_seq.so to _ost_seq.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_seq_alg.so to _ost_seq_alg.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_mol.so to _ost_mol.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_mol_alg.so to _ost_mol_alg.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_io.so to _ost_io.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_info.so to _ost_info.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_img.so to _ost_img.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_img_alg.so to _ost_img_alg.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_gui.so to _ost_gui.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_gfx.so to _ost_gfx.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_geom.so to _ost_geom.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_db.so to _ost_db.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_conop.so to _ost_conop.cpython-39-x86_64-linux-gnu.so I: dh_python3 fs:343: renaming _ost_bindings.so to _ost_bindings.cpython-39-x86_64-linux-gnu.so dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dpkg-gencontrol: warning: package python3-ost: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-ost: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-ost: substitution variable ${python3:Provides} unused, but is defined 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-seq2.2' in '../libost-seq2.2_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-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-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-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-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-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-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-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'. dpkg-deb: building package 'libost-seq-alg2.2-dbgsym' in '../libost-seq-alg2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-mol-alg2.2' in '../libost-mol-alg2.2_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-mol-alg2.2-dbgsym' in '../libost-mol-alg2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-img-alg2.2' in '../libost-img-alg2.2_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-img-alg2.2-dbgsym' in '../libost-img-alg2.2-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'python3-ost-dbgsym' in '../python3-ost-dbgsym_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-base-dev' in '../libost-base-dev_2.2.0-6_amd64.deb'. dpkg-deb: building package 'libost-bindings-dev' in '../libost-bindings-dev_2.2.0-6_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../openstructure_2.2.0-6_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . 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/660091 and its subdirectories I: Current time: Fri Feb 3 01:18:52 +14 2023 I: pbuilder-time-stamp: 1675336732