Sun May 28 03:20:40 UTC 2023 I: starting to build openstructure/bookworm/armhf on jenkins on '2023-05-28 03:20' Sun May 28 03:20:40 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_25/3487/console.log Sun May 28 03:20:40 UTC 2023 I: Downloading source for bookworm/openstructure=2.3.1-9 --2023-05-28 03:20:40-- http://cdn-fastly.deb.debian.org/debian/pool/main/o/openstructure/openstructure_2.3.1-9.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 4617 (4.5K) [text/prs.lines.tag] Saving to: ‘openstructure_2.3.1-9.dsc’ 0K .... 100% 319M=0s 2023-05-28 03:20:40 (319 MB/s) - ‘openstructure_2.3.1-9.dsc’ saved [4617/4617] Sun May 28 03:20:40 UTC 2023 I: openstructure_2.3.1-9.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: openstructure Binary: libost-base2.3, libost-bindings2.3, libost-conop2.3, libost-db2.3, libost-geom2.3, libost-gfx2.3, libost-gui2.3, libost-img-alg2.3, libost-img2.3, libost-info2.3, libost-io2.3, libost-mol-alg2.3, libost-mol-mm2.3, libost-mol2.3, libost-seq-alg2.3, libost-seq2.3, openstructure, python3-ost, libost-base-dev, libost-bindings-dev, libost-conop-dev, libost-db-dev, libost-geom-dev, libost-gfx-dev, libost-gui-dev, libost-img-alg-dev, libost-img-dev, libost-info-dev, libost-io-dev, libost-mol-alg-dev, libost-mol-mm-dev, libost-mol-dev, libost-seq-alg-dev, libost-seq-dev Architecture: any Version: 2.3.1-9 Maintainer: Debichem Team Uploaders: Andrius Merkys , Homepage: https://www.openstructure.org Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/debichem-team/openstructure Vcs-Git: https://salsa.debian.org/debichem-team/openstructure.git Testsuite: autopkgtest Testsuite-Triggers: clustalw, dssp, ncbi-blast+, voronota Build-Depends: clustalw , cmake, debhelper-compat (= 13), dh-python, dssp , libboost-all-dev, libeigen3-dev, libfftw3-dev, libglu1-mesa-dev, libopenmm-dev [amd64 arm64 ppc64el], libopenmm-plugins [amd64 arm64 ppc64el], 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 Package-List: libost-base-dev deb libdevel optional arch=any libost-base2.3 deb libs optional arch=any libost-bindings-dev deb libdevel optional arch=any libost-bindings2.3 deb libs optional arch=any libost-conop-dev deb libdevel optional arch=any libost-conop2.3 deb libs optional arch=any libost-db-dev deb libdevel optional arch=any libost-db2.3 deb libs optional arch=any libost-geom-dev deb libdevel optional arch=any libost-geom2.3 deb libs optional arch=any libost-gfx-dev deb libdevel optional arch=any libost-gfx2.3 deb libs optional arch=any libost-gui-dev deb libdevel optional arch=any libost-gui2.3 deb libs optional arch=any libost-img-alg-dev deb libdevel optional arch=any libost-img-alg2.3 deb libs optional arch=any libost-img-dev deb libdevel optional arch=any libost-img2.3 deb libs optional arch=any libost-info-dev deb libdevel optional arch=any libost-info2.3 deb libs optional arch=any libost-io-dev deb libdevel optional arch=any libost-io2.3 deb libs optional arch=any libost-mol-alg-dev deb libdevel optional arch=any libost-mol-alg2.3 deb libs optional arch=any libost-mol-dev deb libdevel optional arch=any libost-mol-mm-dev deb libdevel optional arch=amd64,arm64,ppc64el libost-mol-mm2.3 deb libs optional arch=amd64,arm64,ppc64el libost-mol2.3 deb libs optional arch=any libost-seq-alg-dev deb libdevel optional arch=any libost-seq-alg2.3 deb libs optional arch=any libost-seq-dev deb libdevel optional arch=any libost-seq2.3 deb libs optional arch=any openstructure deb science optional arch=any python3-ost deb python optional arch=any Checksums-Sha1: ef529a73f80cf1d419a8b2553bc790251b328034 36396711 openstructure_2.3.1.orig.tar.gz 21a29136bba759745d17a40f1553d46227a9d652 84062732 openstructure_2.3.1-9.debian.tar.xz Checksums-Sha256: 35bf056adfad8a0963bc83603df879516a6277b35e4fb789043aeaf087076a2c 36396711 openstructure_2.3.1.orig.tar.gz 833f305194c546155c25da8f9502e36e01e64ee0c61a2c7bb0cdc5e7e1b36214 84062732 openstructure_2.3.1-9.debian.tar.xz Files: 57e85cc95792797ac3979df7f673cf7c 36396711 openstructure_2.3.1.orig.tar.gz 084250628c50ea532edca3fee43f148a 84062732 openstructure_2.3.1-9.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEdyKS9veshfrgQdQe5fQ/nCc08ocFAmRtmcUSHG1lcmt5c0Bk ZWJpYW4ub3JnAAoJEOX0P5wnNPKH7bkQAIrBGevjJ1nyEI5JDcpdUShuFVkf2VnC VknvFkcwFVJsEXwbfIS6wuLaQ6Y1zhtooGnEAIG5tch4jLazgNS6jUgJ72kLWJ4A pMH7kDq67BboEZ9ZoiEbhiAQO3ZI1HEbsuDIfD3LsTqXH0b3uu7uEtUPWZXi4meQ Si0Q/pGFS83PbAF/lMPqYP6bbjGJTav4VrLz/Sbehyk9uMFTmpt2/TOxgPezkRBP I6Bx+8MyqlWiX7hYfVkZfV9Kuqta1sP7JGjzZztaWrw4hZ7py3Bf6+w+Jcd/A+ay Hs5qNuMSc/gkMR0Z+KKNqZRE4cSQJD8LIHwxo3uDBjpia+1OU6/TnYpCCJSoapbW f7rjZIj03/ZJUzi3naW+9mzBctP6ar5nxHz+izHGd4Ml5IHJ5/JQCIkd5nAzX8l6 dBbWAKJ/iU7hDaBfcapcGqt4FHMx5mR3+i6kLEFO0jNuHNTFIUtEtL1u7T16IiAS aWd/Ymb6MYgCpYNulIFTAJMt3WP5Ims3euKsoBkmO5rgn6hNobWK//NypuSP62Nf 44hAksyc5nTLraYjLPD0CeLT/MrxTwLke47wGtNciZO55irV5hnG3I9OOgk/Gekv mSmP7NHA+CKQJ3zmWvSHRVWoi00Pu/8+1K25bDhbllPseDNnviV3zjW2SbbMqDe1 /5OSd/n/o2j0 =9hOh -----END PGP SIGNATURE----- Sun May 28 03:20:40 UTC 2023 I: Checking whether the package is not for us Sun May 28 03:20:40 UTC 2023 I: Starting 1st build on remote node virt32c-armhf-rb.debian.net. Sun May 28 03:20:40 UTC 2023 I: Preparing to do remote build '1' on virt32c-armhf-rb.debian.net. Sun May 28 21:21:21 UTC 2023 I: Deleting $TMPDIR on virt32c-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat May 27 15:21:03 -12 2023 I: pbuilder-time-stamp: 1685244063 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. 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_2.3.1-9.dsc] I: copying [./openstructure_2.3.1.orig.tar.gz] I: copying [./openstructure_2.3.1-9.debian.tar.xz] I: Extracting source gpgv: Signature made Tue May 23 16:59:49 2023 -12 gpgv: using RSA key 772292F6F7AC85FAE041D41EE5F43F9C2734F287 gpgv: issuer "merkys@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./openstructure_2.3.1-9.dsc: no acceptable signature found dpkg-source: info: extracting openstructure in openstructure-2.3.1 dpkg-source: info: unpacking openstructure_2.3.1.orig.tar.gz dpkg-source: info: unpacking openstructure_2.3.1-9.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 86c621b68f23f98fc30ed230be222ce4dd9432cd.patch dpkg-source: info: applying b2798f24c37cb2ff0f46b929a4d41b4f3ce54a68.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/30428/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='1d909d7555204d56aaed69f0fa6e4319' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='30428' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.Sept5lMo/pbuilderrc_nnkw --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Sept5lMo/b1 --logfile b1/build.log openstructure_2.3.1-9.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt32c 5.10.0-23-armmp-lpae #1 SMP Debian 5.10.179-1 (2023-05-12) armv7l GNU/Linux I: ls -l /bin total 5072 -rwxr-xr-x 1 root root 838488 Apr 23 09:24 bash -rwxr-xr-x 3 root root 67144 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 67112 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 67632 Sep 20 2022 cat -rwxr-xr-x 1 root root 67676 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67644 Sep 20 2022 chmod -rwxr-xr-x 1 root root 67684 Sep 20 2022 chown -rwxr-xr-x 1 root root 133532 Sep 20 2022 cp -rwxr-xr-x 1 root root 132868 Jan 5 01:20 dash -rwxr-xr-x 1 root root 133220 Sep 20 2022 date -rwxr-xr-x 1 root root 67732 Sep 20 2022 dd -rwxr-xr-x 1 root root 68104 Sep 20 2022 df -rwxr-xr-x 1 root root 133632 Sep 20 2022 dir -rwxr-xr-x 1 root root 59128 Mar 22 21:02 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 67560 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 67548 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 55748 Mar 22 21:02 findmnt -rwsr-xr-x 1 root root 26208 Mar 22 20:15 fusermount -rwxr-xr-x 1 root root 128608 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 64220 Apr 9 2022 gzip -rwxr-xr-x 1 root root 67032 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 67720 Sep 20 2022 ln -rwxr-xr-x 1 root root 35132 Mar 22 21:51 login -rwxr-xr-x 1 root root 133632 Sep 20 2022 ls -rwxr-xr-x 1 root root 136808 Mar 22 21:02 lsblk -rwxr-xr-x 1 root root 67800 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 67764 Sep 20 2022 mknod -rwxr-xr-x 1 root root 67596 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 38504 Mar 22 21:02 more -rwsr-xr-x 1 root root 38496 Mar 22 21:02 mount -rwxr-xr-x 1 root root 9824 Mar 22 21:02 mountpoint -rwxr-xr-x 1 root root 133532 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 67608 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:24 rbash -> bash -rwxr-xr-x 1 root root 67600 Sep 20 2022 readlink -rwxr-xr-x 1 root root 67672 Sep 20 2022 rm -rwxr-xr-x 1 root root 67600 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 67400 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 133372 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 67584 Sep 20 2022 sleep -rwxr-xr-x 1 root root 67644 Sep 20 2022 stty -rwsr-xr-x 1 root root 50800 Mar 22 21:02 su -rwxr-xr-x 1 root root 67584 Sep 20 2022 sync -rwxr-xr-x 1 root root 336764 Apr 6 02:25 tar -rwxr-xr-x 1 root root 67144 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 133224 Sep 20 2022 touch -rwxr-xr-x 1 root root 67548 Sep 20 2022 true -rwxr-xr-x 1 root root 9768 Mar 22 20:15 ulockmgr_server -rwsr-xr-x 1 root root 22108 Mar 22 21:02 umount -rwxr-xr-x 1 root root 67572 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 133632 Sep 20 2022 vdir -rwxr-xr-x 1 root root 42608 Mar 22 21:02 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/30428/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: armhf 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 ... 19324 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} blt{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-12{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} libcbor0.8{a} libcifpp-data{a} libcifpp5{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-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-single3{a} libfido2-1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgfortran-12-dev{a} libgfortran5{a} libgl-dev{a} libgl1{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} 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} libicu72{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} libjsoncpp25{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-2.5-0{a} liblerc-dev{a} liblerc4{a} libllvm15{a} libltdl-dev{a} libltdl7{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libmd4c0{a} libmtdev1{a} libmunge2{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} libopenjp2-7{a} libopenmpi-dev{a} libopenmpi3{a} libpciaccess0{a} libpcre2-16-0{a} libpipeline1{a} libpkgconf3{a} libpmix-dev{a} libpmix2{a} libpng-dev{a} libpng16-16{a} libproc2-0{a} libpsl5{a} libpthread-stubs0-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libqhull-r8.0{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} libraqm0{a} librdmacm1{a} libreadline8{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsm6{a} libsqlite3-dev{a} libssh2-1{a} libsub-override-perl{a} libtcl8.6{a} libtiff-dev{a} libtiff6{a} libtiffxx6{a} libtk8.6{a} libtool{a} libuchardet0{a} libuv1{a} libvulkan-dev{a} libvulkan1{a} libwacom-common{a} libwacom9{a} libwayland-client0{a} libwayland-server0{a} libwebp-dev{a} libwebp7{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} libxdmcp-dev{a} libxdmcp6{a} libxext-dev{a} libxext6{a} libxfixes3{a} libxft2{a} libxkbcommon-x11-0{a} libxkbcommon0{a} libxml2{a} libxnvctrl0{a} libxrender1{a} libxshmfence1{a} libxslt1.1{a} libxss1{a} libxxf86vm1{a} libz3-4{a} libzstd-dev{a} m4{a} man-db{a} media-types{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} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python-matplotlib-data{a} python3{a} python3-appdirs{a} python3-attr{a} python3-brotli{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-fonttools{a} python3-fs{a} python3-kiwisolver{a} python3-lib2to3{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-mpmath{a} python3-numpy{a} python3-packaging{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-pyparsing{a} python3-pyqt5{a} python3-pyqt5.sip{a} python3-scipy{a} python3-six{a} python3-sympy{a} python3-tk{a} python3-tz{a} python3-ufolib2{a} python3-unicodedata2{a} python3.11{a} python3.11-dev{a} python3.11-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} tk8.6-blt2.5{a} unicode-data{a} voronota{a} x11-common{a} x11proto-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 isympy-common javascript-common libarchive-cpio-perl libcoarrays-openmpi-dev libglib2.0-data libldap-common libmail-sendmail-perl libpng-tools libqt5sql5-ibase libqt5sql5-mysql libqt5sql5-odbc libqt5sql5-psql libqt5sql5-sqlite libqt5sql5-tds libqt5svg5 libsasl2-modules lynx mesa-vulkan-drivers psmisc publicsuffix python3-bs4 python3-html5lib python3-olefile python3-sip-dev qt5-gtk-platformtheme qttranslations5-l10n qtwayland5 wget xauth xdg-user-dirs 0 packages upgraded, 415 newly installed, 0 to remove and 0 not upgraded. Need to get 222 MB of archives. After unpacking 1088 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main armhf libpython3.11-minimal armhf 3.11.2-6 [798 kB] Get: 2 http://deb.debian.org/debian bookworm/main armhf libexpat1 armhf 2.5.0-1 [79.9 kB] Get: 3 http://deb.debian.org/debian bookworm/main armhf python3.11-minimal armhf 3.11.2-6 [1714 kB] Get: 4 http://deb.debian.org/debian bookworm/main armhf python3-minimal armhf 3.11.2-1+b1 [26.3 kB] Get: 5 http://deb.debian.org/debian bookworm/main armhf media-types all 10.0.0 [26.1 kB] Get: 6 http://deb.debian.org/debian bookworm/main armhf readline-common all 8.2-1.3 [69.0 kB] Get: 7 http://deb.debian.org/debian bookworm/main armhf libreadline8 armhf 8.2-1.3 [144 kB] Get: 8 http://deb.debian.org/debian bookworm/main armhf libpython3.11-stdlib armhf 3.11.2-6 [1678 kB] Get: 9 http://deb.debian.org/debian bookworm/main armhf python3.11 armhf 3.11.2-6 [572 kB] Get: 10 http://deb.debian.org/debian bookworm/main armhf libpython3-stdlib armhf 3.11.2-1+b1 [9296 B] Get: 11 http://deb.debian.org/debian bookworm/main armhf python3 armhf 3.11.2-1+b1 [26.3 kB] Get: 12 http://deb.debian.org/debian bookworm/main armhf libproc2-0 armhf 2:4.0.2-3 [54.2 kB] Get: 13 http://deb.debian.org/debian bookworm/main armhf procps armhf 2:4.0.2-3 [695 kB] Get: 14 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 15 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB] Get: 16 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB] Get: 17 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB] Get: 18 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB] Get: 19 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 20 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB] Get: 21 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB] Get: 22 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB] Get: 23 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB] Get: 24 http://deb.debian.org/debian bookworm/main armhf libbsd0 armhf 0.11.7-2 [113 kB] Get: 25 http://deb.debian.org/debian bookworm/main armhf libedit2 armhf 3.1-20221030-2 [77.0 kB] Get: 26 http://deb.debian.org/debian bookworm/main armhf libcbor0.8 armhf 0.8.0-2+b1 [23.1 kB] Get: 27 http://deb.debian.org/debian bookworm/main armhf libfido2-1 armhf 1.12.0-2+b1 [69.3 kB] Get: 28 http://deb.debian.org/debian bookworm/main armhf openssh-client armhf 1:9.2p1-2 [893 kB] Get: 29 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB] Get: 30 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB] Get: 31 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 32 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 33 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB] Get: 34 http://deb.debian.org/debian bookworm/main armhf libtcl8.6 armhf 8.6.13+dfsg-2 [922 kB] Get: 35 http://deb.debian.org/debian bookworm/main armhf libbrotli1 armhf 1.0.9-2+b6 [271 kB] Get: 36 http://deb.debian.org/debian bookworm/main armhf libpng16-16 armhf 1.6.39-2 [260 kB] Get: 37 http://deb.debian.org/debian bookworm/main armhf libfreetype6 armhf 2.12.1+dfsg-5 [332 kB] Get: 38 http://deb.debian.org/debian bookworm/main armhf fonts-dejavu-core all 2.37-6 [1068 kB] Get: 39 http://deb.debian.org/debian bookworm/main armhf fontconfig-config armhf 2.14.1-4 [315 kB] Get: 40 http://deb.debian.org/debian bookworm/main armhf libfontconfig1 armhf 2.14.1-4 [368 kB] Get: 41 http://deb.debian.org/debian bookworm/main armhf libxau6 armhf 1:1.0.9-1 [19.0 kB] Get: 42 http://deb.debian.org/debian bookworm/main armhf libxdmcp6 armhf 1:1.1.2-3 [24.9 kB] Get: 43 http://deb.debian.org/debian bookworm/main armhf libxcb1 armhf 1.15-1 [140 kB] Get: 44 http://deb.debian.org/debian bookworm/main armhf libx11-data all 2:1.8.4-2 [292 kB] Get: 45 http://deb.debian.org/debian bookworm/main armhf libx11-6 armhf 2:1.8.4-2 [695 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf libxrender1 armhf 1:0.9.10-1.1 [30.1 kB] Get: 47 http://deb.debian.org/debian bookworm/main armhf libxft2 armhf 2.3.6-1 [53.8 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf libxext6 armhf 2:1.3.4-1+b1 [47.8 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf x11-common all 1:7.7+23 [252 kB] Get: 50 http://deb.debian.org/debian bookworm/main armhf libxss1 armhf 1:1.2.3-1 [17.2 kB] Get: 51 http://deb.debian.org/debian bookworm/main armhf libtk8.6 armhf 8.6.13-2 [689 kB] Get: 52 http://deb.debian.org/debian bookworm/main armhf tk8.6-blt2.5 armhf 2.5.3+dfsg-4.1 [489 kB] Get: 53 http://deb.debian.org/debian bookworm/main armhf blt armhf 2.5.3+dfsg-4.1 [14.9 kB] Get: 54 http://deb.debian.org/debian bookworm/main armhf clustalw armhf 2.1+lgpl-7 [256 kB] Get: 55 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB] Get: 56 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.2 [591 kB] Get: 57 http://deb.debian.org/debian bookworm/main armhf libarchive13 armhf 3.6.2-1 [299 kB] Get: 58 http://deb.debian.org/debian bookworm/main armhf libsasl2-modules-db armhf 2.1.28+dfsg-10 [19.0 kB] Get: 59 http://deb.debian.org/debian bookworm/main armhf libsasl2-2 armhf 2.1.28+dfsg-10 [52.3 kB] Get: 60 http://deb.debian.org/debian bookworm/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5 [158 kB] Get: 61 http://deb.debian.org/debian bookworm/main armhf libnghttp2-14 armhf 1.52.0-1 [60.8 kB] Get: 62 http://deb.debian.org/debian bookworm/main armhf libpsl5 armhf 0.21.2-1 [57.5 kB] Get: 63 http://deb.debian.org/debian bookworm/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 64 http://deb.debian.org/debian bookworm/main armhf libssh2-1 armhf 1.10.0-3+b1 [163 kB] Get: 65 http://deb.debian.org/debian bookworm/main armhf libcurl4 armhf 7.88.1-9 [347 kB] Get: 66 http://deb.debian.org/debian bookworm/main armhf libjsoncpp25 armhf 1.9.5-4 [68.6 kB] Get: 67 http://deb.debian.org/debian bookworm/main armhf librhash0 armhf 1.4.3-3 [146 kB] Get: 68 http://deb.debian.org/debian bookworm/main armhf libuv1 armhf 1.44.2-1 [126 kB] Get: 69 http://deb.debian.org/debian bookworm/main armhf cmake-data all 3.25.1-1 [2026 kB] Get: 70 http://deb.debian.org/debian bookworm/main armhf cmake armhf 3.25.1-1 [4263 kB] Get: 71 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB] Get: 72 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB] Get: 73 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB] Get: 74 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 75 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B] Get: 76 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 77 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 78 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB] Get: 79 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB] Get: 80 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB] Get: 81 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 82 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 83 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 84 http://deb.debian.org/debian bookworm/main armhf python3-lib2to3 all 3.11.2-3 [76.3 kB] Get: 85 http://deb.debian.org/debian bookworm/main armhf python3-distutils all 3.11.2-3 [131 kB] Get: 86 http://deb.debian.org/debian bookworm/main armhf dh-python all 5.20230130 [104 kB] Get: 87 http://deb.debian.org/debian bookworm/main armhf libboost-regex1.74.0 armhf 1.74.0+ds1-21 [432 kB] Get: 88 http://deb.debian.org/debian bookworm/main armhf libcifpp-data all 5.0.7.1-1 [452 kB] Get: 89 http://deb.debian.org/debian bookworm/main armhf libcifpp5 armhf 5.0.7.1-1 [691 kB] Get: 90 http://deb.debian.org/debian bookworm/main armhf dssp armhf 4.2.2-2 [600 kB] Get: 91 http://deb.debian.org/debian bookworm/main armhf fontconfig armhf 2.14.1-4 [448 kB] Get: 92 http://deb.debian.org/debian bookworm/main armhf fonts-lyx all 2.3.7-1 [186 kB] Get: 93 http://deb.debian.org/debian bookworm/main armhf libgfortran5 armhf 12.2.0-14 [246 kB] Get: 94 http://deb.debian.org/debian bookworm/main armhf libgfortran-12-dev armhf 12.2.0-14 [298 kB] Get: 95 http://deb.debian.org/debian bookworm/main armhf gfortran-12 armhf 12.2.0-14 [7633 kB] Get: 96 http://deb.debian.org/debian bookworm/main armhf libnl-3-200 armhf 3.7.0-0.2+b1 [55.8 kB] Get: 97 http://deb.debian.org/debian bookworm/main armhf libnl-route-3-200 armhf 3.7.0-0.2+b1 [156 kB] Get: 98 http://deb.debian.org/debian bookworm/main armhf libibverbs1 armhf 44.0-2 [53.6 kB] Get: 99 http://deb.debian.org/debian bookworm/main armhf ibverbs-providers armhf 44.0-2 [28.4 kB] Get: 100 http://deb.debian.org/debian bookworm/main armhf icu-devtools armhf 72.1-3 [183 kB] Get: 101 http://deb.debian.org/debian bookworm/main armhf libavahi-common-data armhf 0.8-10 [107 kB] Get: 102 http://deb.debian.org/debian bookworm/main armhf libavahi-common3 armhf 0.8-10 [38.3 kB] Get: 103 http://deb.debian.org/debian bookworm/main armhf libdbus-1-3 armhf 1.14.6-1 [177 kB] Get: 104 http://deb.debian.org/debian bookworm/main armhf libavahi-client3 armhf 0.8-10 [41.6 kB] Get: 105 http://deb.debian.org/debian bookworm/main armhf libblas3 armhf 3.11.0-2 [105 kB] Get: 106 http://deb.debian.org/debian bookworm/main armhf libboost1.74-dev armhf 1.74.0+ds1-21 [9508 kB] Get: 107 http://deb.debian.org/debian bookworm/main armhf libboost-dev armhf 1.74.0.3 [4548 B] Get: 108 http://deb.debian.org/debian bookworm/main armhf libboost1.74-tools-dev armhf 1.74.0+ds1-21 [1288 kB] Get: 109 http://deb.debian.org/debian bookworm/main armhf libboost-tools-dev armhf 1.74.0.3 [4508 B] Get: 110 http://deb.debian.org/debian bookworm/main armhf libboost-atomic1.74.0 armhf 1.74.0+ds1-21 [220 kB] Get: 111 http://deb.debian.org/debian bookworm/main armhf libboost-atomic1.74-dev armhf 1.74.0+ds1-21 [221 kB] Get: 112 http://deb.debian.org/debian bookworm/main armhf libboost-atomic-dev armhf 1.74.0.3 [4640 B] Get: 113 http://deb.debian.org/debian bookworm/main armhf libboost-chrono1.74.0 armhf 1.74.0+ds1-21 [224 kB] Get: 114 http://deb.debian.org/debian bookworm/main armhf libboost-chrono1.74-dev armhf 1.74.0+ds1-21 [231 kB] Get: 115 http://deb.debian.org/debian bookworm/main armhf libboost-chrono-dev armhf 1.74.0.3 [4960 B] Get: 116 http://deb.debian.org/debian bookworm/main armhf libboost-container1.74.0 armhf 1.74.0+ds1-21 [242 kB] Get: 117 http://deb.debian.org/debian bookworm/main armhf libboost-container1.74-dev armhf 1.74.0+ds1-21 [247 kB] Get: 118 http://deb.debian.org/debian bookworm/main armhf libboost-container-dev armhf 1.74.0.3 [4812 B] Get: 119 http://deb.debian.org/debian bookworm/main armhf libboost-date-time1.74.0 armhf 1.74.0+ds1-21 [217 kB] Get: 120 http://deb.debian.org/debian bookworm/main armhf libboost-serialization1.74.0 armhf 1.74.0+ds1-21 [298 kB] Get: 121 http://deb.debian.org/debian bookworm/main armhf libboost-serialization1.74-dev armhf 1.74.0+ds1-21 [368 kB] Get: 122 http://deb.debian.org/debian bookworm/main armhf libboost-date-time1.74-dev armhf 1.74.0+ds1-21 [226 kB] Get: 123 http://deb.debian.org/debian bookworm/main armhf libboost-system1.74.0 armhf 1.74.0+ds1-21 [218 kB] Get: 124 http://deb.debian.org/debian bookworm/main armhf libboost-system1.74-dev armhf 1.74.0+ds1-21 [219 kB] Get: 125 http://deb.debian.org/debian bookworm/main armhf libboost-thread1.74.0 armhf 1.74.0+ds1-21 [248 kB] Get: 126 http://deb.debian.org/debian bookworm/main armhf libboost-thread1.74-dev armhf 1.74.0+ds1-21 [262 kB] Get: 127 http://deb.debian.org/debian bookworm/main armhf libboost-context1.74.0 armhf 1.74.0+ds1-21 [219 kB] Get: 128 http://deb.debian.org/debian bookworm/main armhf libboost-context1.74-dev armhf 1.74.0+ds1-21 [220 kB] Get: 129 http://deb.debian.org/debian bookworm/main armhf libboost-context-dev armhf 1.74.0.3 [4540 B] Get: 130 http://deb.debian.org/debian bookworm/main armhf libboost-coroutine1.74.0 armhf 1.74.0+ds1-21 [228 kB] Get: 131 http://deb.debian.org/debian bookworm/main armhf libboost-coroutine1.74-dev armhf 1.74.0+ds1-21 [235 kB] Get: 132 http://deb.debian.org/debian bookworm/main armhf libboost-coroutine-dev armhf 1.74.0.3 [4608 B] Get: 133 http://deb.debian.org/debian bookworm/main armhf libboost-date-time-dev armhf 1.74.0.3 [4332 B] Get: 134 http://deb.debian.org/debian bookworm/main armhf libboost-exception1.74-dev armhf 1.74.0+ds1-21 [217 kB] Get: 135 http://deb.debian.org/debian bookworm/main armhf libboost-exception-dev armhf 1.74.0.3 [4320 B] Get: 136 http://deb.debian.org/debian bookworm/main armhf libboost-filesystem1.74.0 armhf 1.74.0+ds1-21 [250 kB] Get: 137 http://deb.debian.org/debian bookworm/main armhf libboost-filesystem1.74-dev armhf 1.74.0+ds1-21 [264 kB] Get: 138 http://deb.debian.org/debian bookworm/main armhf libboost-fiber1.74.0 armhf 1.74.0+ds1-21 [238 kB] Get: 139 http://deb.debian.org/debian bookworm/main armhf libboost-fiber1.74-dev armhf 1.74.0+ds1-21 [252 kB] Get: 140 http://deb.debian.org/debian bookworm/main armhf libboost-fiber-dev armhf 1.74.0.3 [4760 B] Get: 141 http://deb.debian.org/debian bookworm/main armhf libboost-filesystem-dev armhf 1.74.0.3 [4368 B] Get: 142 http://deb.debian.org/debian bookworm/main armhf libboost-graph1.74.0 armhf 1.74.0+ds1-21 [285 kB] Get: 143 http://deb.debian.org/debian bookworm/main armhf libicu-dev armhf 72.1-3 [10.1 MB] Get: 144 http://deb.debian.org/debian bookworm/main armhf libboost-regex1.74-dev armhf 1.74.0+ds1-21 [543 kB] Get: 145 http://deb.debian.org/debian bookworm/main armhf libboost-test1.74.0 armhf 1.74.0+ds1-21 [412 kB] Get: 146 http://deb.debian.org/debian bookworm/main armhf libboost-test1.74-dev armhf 1.74.0+ds1-21 [516 kB] Get: 147 http://deb.debian.org/debian bookworm/main armhf libboost-graph1.74-dev armhf 1.74.0+ds1-21 [1526 kB] Get: 148 http://deb.debian.org/debian bookworm/main armhf libboost-graph-dev armhf 1.74.0.3 [4436 B] Get: 149 http://deb.debian.org/debian bookworm/main armhf libevent-core-2.1-7 armhf 2.1.12-stable-8 [120 kB] Get: 150 http://deb.debian.org/debian bookworm/main armhf libevent-pthreads-2.1-7 armhf 2.1.12-stable-8 [53.2 kB] Get: 151 http://deb.debian.org/debian bookworm/main armhf librdmacm1 armhf 44.0-2 [60.6 kB] Get: 152 http://deb.debian.org/debian bookworm/main armhf libfabric1 armhf 1.17.0-3 [385 kB] Get: 153 http://deb.debian.org/debian bookworm/main armhf libhwloc15 armhf 2.9.0-1 [127 kB] Get: 154 http://deb.debian.org/debian bookworm/main armhf libmunge2 armhf 0.5.15-2 [15.7 kB] Get: 155 http://deb.debian.org/debian bookworm/main armhf libpciaccess0 armhf 0.17-2 [48.7 kB] Get: 156 http://deb.debian.org/debian bookworm/main armhf libxnvctrl0 armhf 525.85.05-1 [12.2 kB] Get: 157 http://deb.debian.org/debian bookworm/main armhf ocl-icd-libopencl1 armhf 2.3.1-1 [40.1 kB] Get: 158 http://deb.debian.org/debian bookworm/main armhf libhwloc-plugins armhf 2.9.0-1 [15.9 kB] Get: 159 http://deb.debian.org/debian bookworm/main armhf libpmix2 armhf 4.2.2-1+b1 [553 kB] Get: 160 http://deb.debian.org/debian bookworm/main armhf libopenmpi3 armhf 4.1.4-3+b1 [1849 kB] Get: 161 http://deb.debian.org/debian bookworm/main armhf libboost-mpi1.74.0 armhf 1.74.0+ds1-21 [250 kB] Get: 162 http://deb.debian.org/debian bookworm/main armhf libboost-graph-parallel1.74.0 armhf 1.74.0+ds1-21 [258 kB] Get: 163 http://deb.debian.org/debian bookworm/main armhf libboost-graph-parallel1.74-dev armhf 1.74.0+ds1-21 [269 kB] Get: 164 http://deb.debian.org/debian bookworm/main armhf libboost-graph-parallel-dev armhf 1.74.0.3 [4460 B] Get: 165 http://deb.debian.org/debian bookworm/main armhf libboost-iostreams1.74-dev armhf 1.74.0+ds1-21 [247 kB] Get: 166 http://deb.debian.org/debian bookworm/main armhf libboost-iostreams-dev armhf 1.74.0.3 [4316 B] Get: 167 http://deb.debian.org/debian bookworm/main armhf libboost-locale1.74.0 armhf 1.74.0+ds1-21 [419 kB] Get: 168 http://deb.debian.org/debian bookworm/main armhf libboost-locale1.74-dev armhf 1.74.0+ds1-21 [554 kB] Get: 169 http://deb.debian.org/debian bookworm/main armhf libboost-locale-dev armhf 1.74.0.3 [4660 B] Get: 170 http://deb.debian.org/debian bookworm/main armhf libboost-log1.74.0 armhf 1.74.0+ds1-21 [530 kB] Get: 171 http://deb.debian.org/debian bookworm/main armhf libboost-log1.74-dev armhf 1.74.0+ds1-21 [747 kB] Get: 172 http://deb.debian.org/debian bookworm/main armhf libboost-log-dev armhf 1.74.0.3 [4540 B] Get: 173 http://deb.debian.org/debian bookworm/main armhf libboost-math1.74.0 armhf 1.74.0+ds1-21 [324 kB] Get: 174 http://deb.debian.org/debian bookworm/main armhf libboost-math1.74-dev armhf 1.74.0+ds1-21 [383 kB] Get: 175 http://deb.debian.org/debian bookworm/main armhf libboost-math-dev armhf 1.74.0.3 [4532 B] Get: 176 http://deb.debian.org/debian bookworm/main armhf openmpi-common all 4.1.4-3 [167 kB] Get: 177 http://deb.debian.org/debian bookworm/main armhf libnl-3-dev armhf 3.7.0-0.2+b1 [98.4 kB] Get: 178 http://deb.debian.org/debian bookworm/main armhf libnl-route-3-dev armhf 3.7.0-0.2+b1 [183 kB] Get: 179 http://deb.debian.org/debian bookworm/main armhf libibverbs-dev armhf 44.0-2 [195 kB] Get: 180 http://deb.debian.org/debian bookworm/main armhf libnuma1 armhf 2.0.16-1 [17.8 kB] Get: 181 http://deb.debian.org/debian bookworm/main armhf libnuma-dev armhf 2.0.16-1 [33.0 kB] Get: 182 http://deb.debian.org/debian bookworm/main armhf libltdl7 armhf 2.4.7-5 [390 kB] Get: 183 http://deb.debian.org/debian bookworm/main armhf libltdl-dev armhf 2.4.7-5 [162 kB] Get: 184 http://deb.debian.org/debian bookworm/main armhf libhwloc-dev armhf 2.9.0-1 [214 kB] Get: 185 http://deb.debian.org/debian bookworm/main armhf libevent-2.1-7 armhf 2.1.12-stable-8 [161 kB] Get: 186 http://deb.debian.org/debian bookworm/main armhf libevent-extra-2.1-7 armhf 2.1.12-stable-8 [97.5 kB] Get: 187 http://deb.debian.org/debian bookworm/main armhf libevent-openssl-2.1-7 armhf 2.1.12-stable-8 [58.3 kB] Get: 188 http://deb.debian.org/debian bookworm/main armhf libevent-dev armhf 2.1.12-stable-8 [290 kB] Get: 189 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] Get: 190 http://deb.debian.org/debian bookworm/main armhf libpmix-dev armhf 4.2.2-1+b1 [864 kB] Get: 191 http://deb.debian.org/debian bookworm/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 192 http://deb.debian.org/debian bookworm/main armhf libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 193 http://deb.debian.org/debian bookworm/main armhf openmpi-bin armhf 4.1.4-3+b1 [194 kB] Get: 194 http://deb.debian.org/debian bookworm/main armhf libopenmpi-dev armhf 4.1.4-3+b1 [920 kB] Get: 195 http://deb.debian.org/debian bookworm/main armhf mpi-default-dev armhf 1.14 [5548 B] Get: 196 http://deb.debian.org/debian bookworm/main armhf libboost-mpi1.74-dev armhf 1.74.0+ds1-21 [278 kB] Get: 197 http://deb.debian.org/debian bookworm/main armhf libboost-mpi-dev armhf 1.74.0.3 [4420 B] Get: 198 http://deb.debian.org/debian bookworm/main armhf libboost-python1.74.0 armhf 1.74.0+ds1-21 [277 kB] Get: 199 http://deb.debian.org/debian bookworm/main armhf mpi-default-bin armhf 1.14 [4752 B] Get: 200 http://deb.debian.org/debian bookworm/main armhf libboost-mpi-python1.74.0 armhf 1.74.0+ds1-21 [321 kB] Get: 201 http://deb.debian.org/debian bookworm/main armhf libboost-mpi-python1.74-dev armhf 1.74.0+ds1-21 [224 kB] Get: 202 http://deb.debian.org/debian bookworm/main armhf libboost-mpi-python-dev armhf 1.74.0.3 [4456 B] Get: 203 http://deb.debian.org/debian bookworm/main armhf libboost-numpy1.74.0 armhf 1.74.0+ds1-21 [226 kB] Get: 204 http://deb.debian.org/debian bookworm/main armhf libboost-numpy1.74-dev armhf 1.74.0+ds1-21 [231 kB] Get: 205 http://deb.debian.org/debian bookworm/main armhf libboost-numpy-dev armhf 1.74.0.3 [4376 B] Get: 206 http://deb.debian.org/debian bookworm/main armhf libboost-program-options1.74.0 armhf 1.74.0+ds1-21 [311 kB] Get: 207 http://deb.debian.org/debian bookworm/main armhf libboost-program-options1.74-dev armhf 1.74.0+ds1-21 [355 kB] Get: 208 http://deb.debian.org/debian bookworm/main armhf libboost-program-options-dev armhf 1.74.0.3 [4340 B] Get: 209 http://deb.debian.org/debian bookworm/main armhf libpython3.11 armhf 3.11.2-6 [1710 kB] Get: 210 http://deb.debian.org/debian bookworm/main armhf libexpat1-dev armhf 2.5.0-1 [134 kB] Get: 211 http://deb.debian.org/debian bookworm/main armhf libpython3.11-dev armhf 3.11.2-6 [3518 kB] Get: 212 http://deb.debian.org/debian bookworm/main armhf libpython3-dev armhf 3.11.2-1+b1 [9556 B] Get: 213 http://deb.debian.org/debian bookworm/main armhf python3.11-dev armhf 3.11.2-6 [615 kB] Get: 214 http://deb.debian.org/debian bookworm/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 215 http://deb.debian.org/debian bookworm/main armhf libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 216 http://deb.debian.org/debian bookworm/main armhf python3-dev armhf 3.11.2-1+b1 [26.2 kB] Get: 217 http://deb.debian.org/debian bookworm/main armhf libboost-python1.74-dev armhf 1.74.0+ds1-21 [304 kB] Get: 218 http://deb.debian.org/debian bookworm/main armhf libboost-python-dev armhf 1.74.0.3 [4632 B] Get: 219 http://deb.debian.org/debian bookworm/main armhf libboost-random1.74.0 armhf 1.74.0+ds1-21 [222 kB] Get: 220 http://deb.debian.org/debian bookworm/main armhf libboost-random1.74-dev armhf 1.74.0+ds1-21 [226 kB] Get: 221 http://deb.debian.org/debian bookworm/main armhf libboost-random-dev armhf 1.74.0.3 [4336 B] Get: 222 http://deb.debian.org/debian bookworm/main armhf libboost-regex-dev armhf 1.74.0.3 [4596 B] Get: 223 http://deb.debian.org/debian bookworm/main armhf libboost-serialization-dev armhf 1.74.0.3 [4560 B] Get: 224 http://deb.debian.org/debian bookworm/main armhf libboost-stacktrace1.74.0 armhf 1.74.0+ds1-21 [253 kB] Get: 225 http://deb.debian.org/debian bookworm/main armhf libboost-stacktrace1.74-dev armhf 1.74.0+ds1-21 [230 kB] Get: 226 http://deb.debian.org/debian bookworm/main armhf libboost-stacktrace-dev armhf 1.74.0.3 [4328 B] Get: 227 http://deb.debian.org/debian bookworm/main armhf libboost-system-dev armhf 1.74.0.3 [4468 B] Get: 228 http://deb.debian.org/debian bookworm/main armhf libboost-test-dev armhf 1.74.0.3 [4364 B] Get: 229 http://deb.debian.org/debian bookworm/main armhf libboost-thread-dev armhf 1.74.0.3 [4356 B] Get: 230 http://deb.debian.org/debian bookworm/main armhf libboost-timer1.74.0 armhf 1.74.0+ds1-21 [222 kB] Get: 231 http://deb.debian.org/debian bookworm/main armhf libboost-timer1.74-dev armhf 1.74.0+ds1-21 [224 kB] Get: 232 http://deb.debian.org/debian bookworm/main armhf libboost-timer-dev armhf 1.74.0.3 [4456 B] Get: 233 http://deb.debian.org/debian bookworm/main armhf libboost-type-erasure1.74.0 armhf 1.74.0+ds1-21 [227 kB] Get: 234 http://deb.debian.org/debian bookworm/main armhf libboost-type-erasure1.74-dev armhf 1.74.0+ds1-21 [233 kB] Get: 235 http://deb.debian.org/debian bookworm/main armhf libboost-type-erasure-dev armhf 1.74.0.3 [4428 B] Get: 236 http://deb.debian.org/debian bookworm/main armhf libboost-wave1.74.0 armhf 1.74.0+ds1-21 [385 kB] Get: 237 http://deb.debian.org/debian bookworm/main armhf libboost-wave1.74-dev armhf 1.74.0+ds1-21 [473 kB] Get: 238 http://deb.debian.org/debian bookworm/main armhf libboost-wave-dev armhf 1.74.0.3 [4360 B] Get: 239 http://deb.debian.org/debian bookworm/main armhf libboost-nowide1.74.0 armhf 1.74.0+ds1-21 [219 kB] Get: 240 http://deb.debian.org/debian bookworm/main armhf libboost-nowide1.74-dev armhf 1.74.0+ds1-21 [220 kB] Get: 241 http://deb.debian.org/debian bookworm/main armhf libboost-nowide-dev armhf 1.74.0.3 [4392 B] Get: 242 http://deb.debian.org/debian bookworm/main armhf libboost-all-dev armhf 1.74.0.3 [4680 B] Get: 243 http://deb.debian.org/debian bookworm/main armhf libcups2 armhf 2.4.2-3 [209 kB] Get: 244 http://deb.debian.org/debian bookworm/main armhf libdeflate0 armhf 1.14-1 [52.2 kB] Get: 245 http://deb.debian.org/debian bookworm/main armhf libdeflate-dev armhf 1.14-1 [48.7 kB] Get: 246 http://deb.debian.org/debian bookworm/main armhf libdouble-conversion3 armhf 3.2.1-1 [39.3 kB] Get: 247 http://deb.debian.org/debian bookworm/main armhf libdrm-common all 2.4.114-1 [7112 B] Get: 248 http://deb.debian.org/debian bookworm/main armhf libdrm2 armhf 2.4.114-1+b1 [33.0 kB] Get: 249 http://deb.debian.org/debian bookworm/main armhf libdrm-amdgpu1 armhf 2.4.114-1+b1 [19.3 kB] Get: 250 http://deb.debian.org/debian bookworm/main armhf libdrm-nouveau2 armhf 2.4.114-1+b1 [16.7 kB] Get: 251 http://deb.debian.org/debian bookworm/main armhf libdrm-radeon1 armhf 2.4.114-1+b1 [19.3 kB] Get: 252 http://deb.debian.org/debian bookworm/main armhf libglvnd0 armhf 1.6.0-1 [51.9 kB] Get: 253 http://deb.debian.org/debian bookworm/main armhf libwayland-server0 armhf 1.21.0-1 [29.3 kB] Get: 254 http://deb.debian.org/debian bookworm/main armhf libgbm1 armhf 22.3.6-1+deb12u1 [34.3 kB] Get: 255 http://deb.debian.org/debian bookworm/main armhf libglapi-mesa armhf 22.3.6-1+deb12u1 [41.0 kB] Get: 256 http://deb.debian.org/debian bookworm/main armhf libwayland-client0 armhf 1.21.0-1 [23.3 kB] Get: 257 http://deb.debian.org/debian bookworm/main armhf libx11-xcb1 armhf 2:1.8.4-2 [192 kB] Get: 258 http://deb.debian.org/debian bookworm/main armhf libxcb-dri2-0 armhf 1.15-1 [107 kB] Get: 259 http://deb.debian.org/debian bookworm/main armhf libxcb-dri3-0 armhf 1.15-1 [107 kB] Get: 260 http://deb.debian.org/debian bookworm/main armhf libxcb-present0 armhf 1.15-1 [105 kB] Get: 261 http://deb.debian.org/debian bookworm/main armhf libxcb-randr0 armhf 1.15-1 [116 kB] Get: 262 http://deb.debian.org/debian bookworm/main armhf libxcb-sync1 armhf 1.15-1 [108 kB] Get: 263 http://deb.debian.org/debian bookworm/main armhf libxcb-xfixes0 armhf 1.15-1 [110 kB] Get: 264 http://deb.debian.org/debian bookworm/main armhf libxshmfence1 armhf 1.3-1 [8592 B] Get: 265 http://deb.debian.org/debian bookworm/main armhf libegl-mesa0 armhf 22.3.6-1+deb12u1 [93.9 kB] Get: 266 http://deb.debian.org/debian bookworm/main armhf libegl1 armhf 1.6.0-1 [28.5 kB] Get: 267 http://deb.debian.org/debian bookworm/main armhf libxcb-glx0 armhf 1.15-1 [120 kB] Get: 268 http://deb.debian.org/debian bookworm/main armhf libxcb-shm0 armhf 1.15-1 [106 kB] Get: 269 http://deb.debian.org/debian bookworm/main armhf libxfixes3 armhf 1:6.0.0-2 [21.1 kB] Get: 270 http://deb.debian.org/debian bookworm/main armhf libxxf86vm1 armhf 1:1.1.4-1+b2 [20.2 kB] Get: 271 http://deb.debian.org/debian bookworm/main armhf libz3-4 armhf 4.8.12-3.1 [6061 kB] Get: 272 http://deb.debian.org/debian bookworm/main armhf libllvm15 armhf 1:15.0.6-4+b1 [20.5 MB] Get: 273 http://deb.debian.org/debian bookworm/main armhf libsensors-config all 1:3.6.0-7.1 [14.3 kB] Get: 274 http://deb.debian.org/debian bookworm/main armhf libsensors5 armhf 1:3.6.0-7.1 [31.6 kB] Get: 275 http://deb.debian.org/debian bookworm/main armhf libgl1-mesa-dri armhf 22.3.6-1+deb12u1 [5792 kB] Get: 276 http://deb.debian.org/debian bookworm/main armhf libglx-mesa0 armhf 22.3.6-1+deb12u1 [126 kB] Get: 277 http://deb.debian.org/debian bookworm/main armhf libglx0 armhf 1.6.0-1 [32.0 kB] Get: 278 http://deb.debian.org/debian bookworm/main armhf libgl1 armhf 1.6.0-1 [90.6 kB] Get: 279 http://deb.debian.org/debian bookworm/main armhf xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get: 280 http://deb.debian.org/debian bookworm/main armhf x11proto-dev all 2022.1-1 [599 kB] Get: 281 http://deb.debian.org/debian bookworm/main armhf libxau-dev armhf 1:1.0.9-1 [22.4 kB] Get: 282 http://deb.debian.org/debian bookworm/main armhf libxdmcp-dev armhf 1:1.1.2-3 [40.7 kB] Get: 283 http://deb.debian.org/debian bookworm/main armhf xtrans-dev all 1.4.0-1 [98.7 kB] Get: 284 http://deb.debian.org/debian bookworm/main armhf libpthread-stubs0-dev armhf 0.4-1 [5344 B] Get: 285 http://deb.debian.org/debian bookworm/main armhf libxcb1-dev armhf 1.15-1 [179 kB] Get: 286 http://deb.debian.org/debian bookworm/main armhf libx11-dev armhf 2:1.8.4-2 [777 kB] Get: 287 http://deb.debian.org/debian bookworm/main armhf libglx-dev armhf 1.6.0-1 [15.3 kB] Get: 288 http://deb.debian.org/debian bookworm/main armhf libgl-dev armhf 1.6.0-1 [100 kB] Get: 289 http://deb.debian.org/debian bookworm/main armhf libegl-dev armhf 1.6.0-1 [19.1 kB] Get: 290 http://deb.debian.org/debian bookworm/main armhf libpkgconf3 armhf 1.8.1-1 [31.3 kB] Get: 291 http://deb.debian.org/debian bookworm/main armhf pkgconf-bin armhf 1.8.1-1 [28.5 kB] Get: 292 http://deb.debian.org/debian bookworm/main armhf pkgconf armhf 1.8.1-1 [25.9 kB] Get: 293 http://deb.debian.org/debian bookworm/main armhf pkg-config armhf 1.8.1-1 [13.7 kB] Get: 294 http://deb.debian.org/debian bookworm/main armhf libeigen3-dev all 3.4.0-4 [1041 kB] Get: 295 http://deb.debian.org/debian bookworm/main armhf libevdev2 armhf 1.13.0+dfsg-1 [28.0 kB] Get: 296 http://deb.debian.org/debian bookworm/main armhf libfftw3-double3 armhf 3.3.10-1 [325 kB] Get: 297 http://deb.debian.org/debian bookworm/main armhf libfftw3-single3 armhf 3.3.10-1 [516 kB] Get: 298 http://deb.debian.org/debian bookworm/main armhf libfftw3-bin armhf 3.3.10-1 [40.8 kB] Get: 299 http://deb.debian.org/debian bookworm/main armhf libfftw3-dev armhf 3.3.10-1 [828 kB] Get: 300 http://deb.debian.org/debian bookworm/main armhf libfribidi0 armhf 1.0.8-2.1 [63.1 kB] Get: 301 http://deb.debian.org/debian bookworm/main armhf libgles1 armhf 1.6.0-1 [11.8 kB] Get: 302 http://deb.debian.org/debian bookworm/main armhf libgles2 armhf 1.6.0-1 [17.3 kB] Get: 303 http://deb.debian.org/debian bookworm/main armhf libgles-dev armhf 1.6.0-1 [50.4 kB] Get: 304 http://deb.debian.org/debian bookworm/main armhf libglib2.0-0 armhf 2.74.6-2 [1227 kB] Get: 305 http://deb.debian.org/debian bookworm/main armhf libopengl0 armhf 1.6.0-1 [31.7 kB] Get: 306 http://deb.debian.org/debian bookworm/main armhf libglu1-mesa armhf 9.0.2-1.1 [137 kB] Get: 307 http://deb.debian.org/debian bookworm/main armhf libopengl-dev armhf 1.6.0-1 [4932 B] Get: 308 http://deb.debian.org/debian bookworm/main armhf libglu1-mesa-dev armhf 9.0.2-1.1 [177 kB] Get: 309 http://deb.debian.org/debian bookworm/main armhf libgraphite2-3 armhf 1.3.14-1 [70.5 kB] Get: 310 http://deb.debian.org/debian bookworm/main armhf libgudev-1.0-0 armhf 237-2 [13.2 kB] Get: 311 http://deb.debian.org/debian bookworm/main armhf libharfbuzz0b armhf 6.0.0+dfsg-3 [1893 kB] Get: 312 http://deb.debian.org/debian bookworm/main armhf libice6 armhf 2:1.0.10-1 [51.9 kB] Get: 313 http://deb.debian.org/debian bookworm/main armhf libimagequant0 armhf 2.17.0-1 [27.9 kB] Get: 314 http://deb.debian.org/debian bookworm/main armhf libwacom-common all 2.6.0-1 [58.4 kB] Get: 315 http://deb.debian.org/debian bookworm/main armhf libwacom9 armhf 2.6.0-1 [18.7 kB] Get: 316 http://deb.debian.org/debian bookworm/main armhf libinput-bin armhf 1.22.1-1 [21.3 kB] Get: 317 http://deb.debian.org/debian bookworm/main armhf libmtdev1 armhf 1.1.6-1 [21.9 kB] Get: 318 http://deb.debian.org/debian bookworm/main armhf libinput10 armhf 1.22.1-1 [107 kB] Get: 319 http://deb.debian.org/debian bookworm/main armhf libjbig0 armhf 2.1-6.1 [27.1 kB] Get: 320 http://deb.debian.org/debian bookworm/main armhf libjbig-dev armhf 2.1-6.1 [27.5 kB] Get: 321 http://deb.debian.org/debian bookworm/main armhf libjpeg62-turbo armhf 1:2.1.5-2 [143 kB] Get: 322 http://deb.debian.org/debian bookworm/main armhf libjpeg62-turbo-dev armhf 1:2.1.5-2 [260 kB] Get: 323 http://deb.debian.org/debian bookworm/main armhf libjpeg-dev armhf 1:2.1.5-2 [71.8 kB] Get: 324 http://deb.debian.org/debian bookworm/main armhf liblapack3 armhf 3.11.0-2 [1724 kB] Get: 325 http://deb.debian.org/debian bookworm/main armhf liblbfgsb0 armhf 3.0+dfsg.4-1 [25.0 kB] Get: 326 http://deb.debian.org/debian bookworm/main armhf liblcms2-2 armhf 2.14-2 [125 kB] Get: 327 http://deb.debian.org/debian bookworm/main armhf liblerc4 armhf 4.0.0+ds-2 [137 kB] Get: 328 http://deb.debian.org/debian bookworm/main armhf liblerc-dev armhf 4.0.0+ds-2 [154 kB] Get: 329 http://deb.debian.org/debian bookworm/main armhf liblzma-dev armhf 5.4.1-0.2 [248 kB] Get: 330 http://deb.debian.org/debian bookworm/main armhf libmd4c0 armhf 0.4.8-1 [40.0 kB] Get: 331 http://deb.debian.org/debian bookworm/main armhf libopenjp2-7 armhf 2.5.0-1+b1 [170 kB] Get: 332 http://deb.debian.org/debian bookworm/main armhf libpcre2-16-0 armhf 10.42-1 [211 kB] Get: 333 http://deb.debian.org/debian bookworm/main armhf libpng-dev armhf 1.6.39-2 [343 kB] Get: 334 http://deb.debian.org/debian bookworm/main armhf libqhull-r8.0 armhf 2020.2-5 [224 kB] Get: 335 http://deb.debian.org/debian bookworm/main armhf shared-mime-info armhf 2.2-1 [726 kB] Get: 336 http://deb.debian.org/debian bookworm/main armhf libqt5core5a armhf 5.15.8+dfsg-10 [1540 kB] Get: 337 http://deb.debian.org/debian bookworm/main armhf libqt5concurrent5 armhf 5.15.8+dfsg-10 [40.7 kB] Get: 338 http://deb.debian.org/debian bookworm/main armhf libqt5dbus5 armhf 5.15.8+dfsg-10 [188 kB] Get: 339 http://deb.debian.org/debian bookworm/main armhf libqt5network5 armhf 5.15.8+dfsg-10 [594 kB] Get: 340 http://deb.debian.org/debian bookworm/main armhf libsm6 armhf 2:1.2.3-1 [33.0 kB] Get: 341 http://deb.debian.org/debian bookworm/main armhf libxcb-icccm4 armhf 0.4.1-1.1 [26.3 kB] Get: 342 http://deb.debian.org/debian bookworm/main armhf libxcb-util1 armhf 0.4.0-1+b1 [22.2 kB] Get: 343 http://deb.debian.org/debian bookworm/main armhf libxcb-image0 armhf 0.4.0-2 [21.7 kB] Get: 344 http://deb.debian.org/debian bookworm/main armhf libxcb-keysyms1 armhf 0.4.0-1+b2 [15.8 kB] Get: 345 http://deb.debian.org/debian bookworm/main armhf libxcb-render0 armhf 1.15-1 [114 kB] Get: 346 http://deb.debian.org/debian bookworm/main armhf libxcb-render-util0 armhf 0.3.9-1+b1 [17.4 kB] Get: 347 http://deb.debian.org/debian bookworm/main armhf libxcb-shape0 armhf 1.15-1 [106 kB] Get: 348 http://deb.debian.org/debian bookworm/main armhf libxcb-xinerama0 armhf 1.15-1 [105 kB] Get: 349 http://deb.debian.org/debian bookworm/main armhf libxcb-xinput0 armhf 1.15-1 [127 kB] Get: 350 http://deb.debian.org/debian bookworm/main armhf libxcb-xkb1 armhf 1.15-1 [127 kB] Get: 351 http://deb.debian.org/debian bookworm/main armhf xkb-data all 2.35.1-1 [764 kB] Get: 352 http://deb.debian.org/debian bookworm/main armhf libxkbcommon0 armhf 1.5.0-1 [94.0 kB] Get: 353 http://deb.debian.org/debian bookworm/main armhf libxkbcommon-x11-0 armhf 1.5.0-1 [13.8 kB] Get: 354 http://deb.debian.org/debian bookworm/main armhf libqt5gui5 armhf 5.15.8+dfsg-10 [2618 kB] Get: 355 http://deb.debian.org/debian bookworm/main armhf libqt5widgets5 armhf 5.15.8+dfsg-10 [2098 kB] Get: 356 http://deb.debian.org/debian bookworm/main armhf libqt5xml5 armhf 5.15.8+dfsg-10 [108 kB] Get: 357 http://deb.debian.org/debian bookworm/main armhf libqt5designer5 armhf 5.15.8-2 [2644 kB] Get: 358 http://deb.debian.org/debian bookworm/main armhf libqt5sql5 armhf 5.15.8+dfsg-10 [108 kB] Get: 359 http://deb.debian.org/debian bookworm/main armhf libqt5help5 armhf 5.15.8-2 [130 kB] Get: 360 http://deb.debian.org/debian bookworm/main armhf libqt5opengl5 armhf 5.15.8+dfsg-10 [125 kB] Get: 361 http://deb.debian.org/debian bookworm/main armhf libqt5printsupport5 armhf 5.15.8+dfsg-10 [184 kB] Get: 362 http://deb.debian.org/debian bookworm/main armhf libqt5test5 armhf 5.15.8+dfsg-10 [131 kB] Get: 363 http://deb.debian.org/debian bookworm/main armhf libvulkan1 armhf 1.3.239.0-1 [102 kB] Get: 364 http://deb.debian.org/debian bookworm/main armhf libvulkan-dev armhf 1.3.239.0-1 [1115 kB] Get: 365 http://deb.debian.org/debian bookworm/main armhf libxext-dev armhf 2:1.3.4-1+b1 [103 kB] Get: 366 http://deb.debian.org/debian bookworm/main armhf qt5-qmake-bin armhf 5.15.8+dfsg-10 [876 kB] Get: 367 http://deb.debian.org/debian bookworm/main armhf qtchooser armhf 66-2 [23.6 kB] Get: 368 http://deb.debian.org/debian bookworm/main armhf qt5-qmake armhf 5.15.8+dfsg-10 [221 kB] Get: 369 http://deb.debian.org/debian bookworm/main armhf qtbase5-dev-tools armhf 5.15.8+dfsg-10 [646 kB] Get: 370 http://deb.debian.org/debian bookworm/main armhf qtbase5-dev armhf 5.15.8+dfsg-10 [1066 kB] Get: 371 http://deb.debian.org/debian bookworm/main armhf libqt5opengl5-dev armhf 5.15.8+dfsg-10 [49.0 kB] Get: 372 http://deb.debian.org/debian bookworm/main armhf libraqm0 armhf 0.7.0-4.1 [9116 B] Get: 373 http://deb.debian.org/debian bookworm/main armhf libsqlite3-dev armhf 3.40.1-2 [926 kB] Get: 374 http://deb.debian.org/debian bookworm/main armhf libzstd-dev armhf 1.5.4+dfsg2-5 [314 kB] Get: 375 http://deb.debian.org/debian bookworm/main armhf libwebp7 armhf 1.2.4-0.2 [242 kB] Get: 376 http://deb.debian.org/debian bookworm/main armhf libwebpmux3 armhf 1.2.4-0.2 [106 kB] Get: 377 http://deb.debian.org/debian bookworm/main armhf libwebpdemux2 armhf 1.2.4-0.2 [98.3 kB] Get: 378 http://deb.debian.org/debian bookworm/main armhf libwebp-dev armhf 1.2.4-0.2 [349 kB] Get: 379 http://deb.debian.org/debian bookworm/main armhf libtiff6 armhf 4.5.0-6 [295 kB] Get: 380 http://deb.debian.org/debian bookworm/main armhf libtiffxx6 armhf 4.5.0-6 [144 kB] Get: 381 http://deb.debian.org/debian bookworm/main armhf libtiff-dev armhf 4.5.0-6 [434 kB] Get: 382 http://deb.debian.org/debian bookworm/main armhf libxslt1.1 armhf 1.1.35-1 [223 kB] Get: 383 http://deb.debian.org/debian bookworm/main armhf python-matplotlib-data all 3.6.3-1 [2744 kB] Get: 384 http://deb.debian.org/debian bookworm/main armhf python3-appdirs all 1.4.4-3 [13.0 kB] Get: 385 http://deb.debian.org/debian bookworm/main armhf python3-attr all 22.2.0-1 [65.4 kB] Get: 386 http://deb.debian.org/debian bookworm/main armhf python3-brotli armhf 1.0.9-2+b6 [274 kB] Get: 387 http://deb.debian.org/debian bookworm/main armhf python3-pkg-resources all 66.1.1-1 [296 kB] Get: 388 http://deb.debian.org/debian bookworm/main armhf python3-numpy armhf 1:1.24.2-1 [4165 kB] Get: 389 http://deb.debian.org/debian bookworm/main armhf python3-contourpy armhf 1.0.7-1+b1 [146 kB] Get: 390 http://deb.debian.org/debian bookworm/main armhf python3-cycler all 0.11.0-1 [8020 B] Get: 391 http://deb.debian.org/debian bookworm/main armhf python3-six all 1.16.0-4 [17.5 kB] Get: 392 http://deb.debian.org/debian bookworm/main armhf python3-dateutil all 2.8.2-2 [78.3 kB] Get: 393 http://deb.debian.org/debian bookworm/main armhf python3-decorator all 5.1.1-3 [14.9 kB] Get: 394 http://deb.debian.org/debian bookworm/main armhf python3-scipy armhf 1.10.1-2 [13.8 MB] Get: 395 http://deb.debian.org/debian bookworm/main armhf python3-ufolib2 all 0.14.0+dfsg1-1 [34.3 kB] Get: 396 http://deb.debian.org/debian bookworm/main armhf python3-mpmath all 1.2.1-2 [418 kB] Get: 397 http://deb.debian.org/debian bookworm/main armhf python3-sympy all 1.11.1-1 [4358 kB] Get: 398 http://deb.debian.org/debian bookworm/main armhf python3-tz all 2022.7.1-4 [30.1 kB] Get: 399 http://deb.debian.org/debian bookworm/main armhf python3-fs all 2.4.16-2 [95.2 kB] Get: 400 http://deb.debian.org/debian bookworm/main armhf python3-lxml armhf 4.9.2-1+b1 [1082 kB] Get: 401 http://deb.debian.org/debian bookworm/main armhf python3-lz4 armhf 4.0.2+dfsg-1+b2 [23.3 kB] Get: 402 http://deb.debian.org/debian bookworm/main armhf python3-unicodedata2 armhf 14.0.0+ds2-1+b2 [297 kB] Get: 403 http://deb.debian.org/debian bookworm/main armhf unicode-data all 15.0.0-1 [7984 kB] Get: 404 http://deb.debian.org/debian bookworm/main armhf python3-fonttools armhf 4.38.0-1+b1 [989 kB] Get: 405 http://deb.debian.org/debian bookworm/main armhf python3-kiwisolver armhf 1.4.4-1+b1 [50.7 kB] Get: 406 http://deb.debian.org/debian bookworm/main armhf python3-pil armhf 9.4.0-1.1+b1 [438 kB] Get: 407 http://deb.debian.org/debian bookworm/main armhf python3-tk armhf 3.11.2-3 [95.4 kB] Get: 408 http://deb.debian.org/debian bookworm/main armhf python3-pil.imagetk armhf 9.4.0-1.1+b1 [73.9 kB] Get: 409 http://deb.debian.org/debian bookworm/main armhf python3-pyparsing all 3.0.9-1 [138 kB] Get: 410 http://deb.debian.org/debian bookworm/main armhf python3-packaging all 23.0-1 [32.5 kB] Get: 411 http://deb.debian.org/debian bookworm/main armhf python3-matplotlib armhf 3.6.3-1+b1 [6784 kB] Get: 412 http://deb.debian.org/debian bookworm/main armhf python3-pyqt5.sip armhf 12.11.1-1 [45.6 kB] Get: 413 http://deb.debian.org/debian bookworm/main armhf python3-pyqt5 armhf 5.15.9+dfsg-1 [1985 kB] Get: 414 http://deb.debian.org/debian bookworm/main armhf sip-dev armhf 4.19.25+dfsg-5+b1 [232 kB] Get: 415 http://deb.debian.org/debian bookworm/main armhf voronota armhf 1.22.3149-2 [1890 kB] Fetched 222 MB in 17s (12.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:armhf. (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 ... 19324 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.2-6_armhf.deb ... Unpacking libpython3.11-minimal:armhf (3.11.2-6) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.5.0-1_armhf.deb ... Unpacking libexpat1:armhf (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_armhf.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:armhf (3.11.2-6) ... Setting up libexpat1:armhf (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... 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 ... 19640 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_armhf.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package readline-common. Preparing to unpack .../2-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:armhf. Preparing to unpack .../3-libreadline8_8.2-1.3_armhf.deb ... Unpacking libreadline8:armhf (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:armhf. Preparing to unpack .../4-libpython3.11-stdlib_3.11.2-6_armhf.deb ... Unpacking libpython3.11-stdlib:armhf (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../5-python3.11_3.11.2-6_armhf.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../6-libpython3-stdlib_3.11.2-1+b1_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... 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 ... 20074 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_armhf.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package libproc2-0:armhf. Preparing to unpack .../001-libproc2-0_2%3a4.0.2-3_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.2-3) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.2-3_armhf.deb ... Unpacking procps (2:4.0.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.44-3_armhf.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../005-libmagic1_1%3a5.44-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.44-3_armhf.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.21-12_armhf.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../008-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.22.4-10_armhf.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.38.1-5+b1_armhf.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../011-libpipeline1_1.5.7-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.11.2-2_armhf.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package libbsd0:armhf. Preparing to unpack .../013-libbsd0_0.11.7-2_armhf.deb ... Unpacking libbsd0:armhf (0.11.7-2) ... Selecting previously unselected package libedit2:armhf. 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Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libsensors-config (1:3.6.0-7.1) ... Setting up libboost-stacktrace1.74.0:armhf (1.74.0+ds1-21) ... Setting up libnghttp2-14:armhf (1.52.0-1) ... Setting up libmagic1:armhf (1:5.44-3) ... Setting up libdeflate0:armhf (1.14-1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libboost-nowide1.74.0 (1.74.0+ds1-21) ... Setting up libqhull-r8.0:armhf (2020.2-5) ... Setting up xkb-data (2.35.1-1) ... Setting up libboost-filesystem1.74.0:armhf (1.74.0+ds1-21) ... Setting up libboost-exception1.74-dev:armhf (1.74.0+ds1-21) ... Setting up file (1:5.44-3) ... Setting up libboost-exception-dev:armhf (1.74.0.3) ... Setting up sip-dev (4.19.25+dfsg-5+b1) ... Setting up libpthread-stubs0-dev:armhf (0.4-1) ... Setting up libjbig0:armhf (2.1-6.1) ... Setting up libpcre2-16-0:armhf (10.42-1) ... 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Setting up libtcl8.6:armhf (8.6.13+dfsg-2) ... Setting up libboost-random1.74.0:armhf (1.74.0+ds1-21) ... Setting up autopoint (0.21-12) ... Setting up libjsoncpp25:armhf (1.9.5-4) ... Setting up icu-devtools (72.1-3) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up libboost1.74-tools-dev (1.74.0+ds1-21) ... Setting up pkgconf-bin (1.8.1-1) ... Setting up libsensors5:armhf (1:3.6.0-7.1) ... Setting up liblerc-dev:armhf (4.0.0+ds-2) ... Setting up libltdl7:armhf (2.4.7-5) ... Setting up libfftw3-double3:armhf (3.3.10-1) ... Setting up libcifpp-data (5.0.7.1-1) ... Setting up libglapi-mesa:armhf (22.3.6-1+deb12u1) ... Setting up libsasl2-2:armhf (2.1.28+dfsg-10) ... Setting up libgfortran5:armhf (12.2.0-14) ... Setting up libmtdev1:armhf (1.1.6-1) ... Setting up libvulkan1:armhf (1.3.239.0-1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:armhf (1.2.4-0.2) ... Setting up libboost-atomic1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libboost-math1.74.0:armhf (1.74.0+ds1-21) ... Setting up liblzma-dev:armhf (5.4.1-0.2) ... Setting up libboost-serialization1.74.0:armhf (1.74.0+ds1-21) ... Setting up zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Setting up libboost-atomic-dev:armhf (1.74.0.3) ... Setting up libnuma1:armhf (2.0.16-1) ... Setting up libboost-container1.74.0:armhf (1.74.0+ds1-21) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up ocl-icd-libopencl1:armhf (2.3.1-1) ... Setting up libxshmfence1:armhf (1.3-1) ... Setting up librhash0:armhf (1.4.3-3) ... Setting up libtiff6:armhf (4.5.0-6) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up procps (2:4.0.2-3) ... Setting up libnl-3-200:armhf (3.7.0-0.2+b1) ... Setting up openmpi-common (4.1.4-3) ... Setting up clustalw (2.1+lgpl-7) ... Setting up libmd4c0:armhf (0.4.8-1) ... Setting up libopenjp2-7:armhf (2.5.0-1+b1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libssh2-1:armhf (1.10.0-3+b1) ... Setting up xorg-sgml-doctools (1:1.11-1.1) ... Setting up cmake-data (3.25.1-1) ... Setting up libboost-dev:armhf (1.74.0.3) ... Setting up libglu1-mesa:armhf (9.0.2-1.1) ... Setting up libboost-math1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libboost-filesystem1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libopengl-dev:armhf (1.6.0-1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libboost-date-time1.74.0:armhf (1.74.0+ds1-21) ... Setting up libfido2-1:armhf (1.12.0-2+b1) ... Setting up libboost-python1.74.0 (1.74.0+ds1-21) ... Setting up libboost-fiber1.74.0:armhf (1.74.0+ds1-21) ... Setting up libboost-stacktrace1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libboost-test1.74-dev:armhf (1.74.0+ds1-21) ... Setting up python-matplotlib-data (3.6.3-1) ... Setting up libwebpmux3:armhf (1.2.4-0.2) ... Setting up libbsd0:armhf (0.11.7-2) ... Setting up libtiffxx6:armhf (4.5.0-6) ... Setting up libdeflate-dev:armhf (1.14-1) ... Setting up libdrm-common (2.4.114-1) ... Setting up libelf1:armhf (0.188-2.1) ... Setting up libevdev2:armhf (1.13.0+dfsg-1) ... Setting up readline-common (8.2-1.3) ... Setting up libboost-timer1.74.0:armhf (1.74.0+ds1-21) ... Setting up libicu-dev:armhf (72.1-3) ... Setting up libxml2:armhf (2.9.14+dfsg-1.2) ... Setting up libboost-filesystem-dev:armhf (1.74.0.3) ... Setting up libgudev-1.0-0:armhf (237-2) ... Setting up qtchooser (66-2) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libboost-thread1.74.0:armhf (1.74.0+ds1-21) ... Setting up libboost-numpy1.74.0 (1.74.0+ds1-21) ... Setting up libevent-pthreads-2.1-7:armhf (2.1.12-stable-8) ... Setting up libwacom-common (2.6.0-1) ... Setting up libxkbcommon0:armhf (1.5.0-1) ... Setting up libwayland-client0:armhf (1.21.0-1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up x11proto-dev (2022.1-1) ... Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libice6:armhf (2:1.0.10-1) ... Setting up libboost-log1.74.0 (1.74.0+ds1-21) ... Setting up libxdmcp6:armhf (1:1.1.2-3) ... Setting up libevent-extra-2.1-7:armhf (2.1.12-stable-8) ... Setting up liblapack3:armhf (3.11.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libxcb1:armhf (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libxcb-xfixes0:armhf (1.15-1) ... Setting up libxau-dev:armhf (1:1.0.9-1) ... Setting up qt5-qmake:armhf (5.15.8+dfsg-10) ... Setting up libxcb-xinput0:armhf (1.15-1) ... Setting up libtool (2.4.7-5) ... Setting up libboost-container1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libarchive13:armhf (3.6.2-1) ... Setting up libxcb-render0:armhf (1.15-1) ... Setting up libboost-chrono-dev:armhf (1.74.0.3) ... Setting up libfftw3-bin (3.3.10-1) ... Setting up libwacom9:armhf (2.6.0-1) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libboost-math-dev:armhf (1.74.0.3) ... Setting up libxcb-glx0:armhf (1.15-1) ... Setting up libboost-coroutine1.74.0:armhf (1.74.0+ds1-21) ... Setting up libwebpdemux2:armhf (1.2.4-0.2) ... Setting up libedit2:armhf (3.1-20221030-2) ... Setting up libreadline8:armhf (8.2-1.3) ... Setting up libboost-system-dev:armhf (1.74.0.3) ... Setting up libpng-dev:armhf (1.6.39-2) ... Setting up libxcb-keysyms1:armhf (0.4.0-1+b2) ... Setting up libxcb-shape0:armhf (1.15-1) ... Setting up libavahi-common3:armhf (0.8-10) ... Setting up libjpeg-dev:armhf (1:2.1.5-2) ... Setting up libjbig-dev:armhf (2.1-6.1) ... Setting up libevent-openssl-2.1-7:armhf (2.1.12-stable-8) ... Setting up libxcb-render-util0:armhf (0.3.9-1+b1) ... Setting up libboost-tools-dev (1.74.0.3) ... Setting up libgfortran-12-dev:armhf (12.2.0-14) ... Setting up libxcb-shm0:armhf (1.15-1) ... Setting up libxcb-icccm4:armhf (0.4.1-1.1) ... Setting up libboost-nowide-dev (1.74.0.3) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Setting up libboost-container-dev:armhf (1.74.0.3) ... Setting up libxcb-util1:armhf (0.4.0-1+b1) ... Setting up pkgconf:armhf (1.8.1-1) ... Setting up libinput-bin (1.22.1-1) ... Setting up libxcb-xkb1:armhf (1.15-1) ... Setting up libxcb-image0:armhf (0.4.0-2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnuma-dev:armhf (2.0.16-1) ... Setting up libnl-route-3-200:armhf (3.7.0-0.2+b1) ... Setting up libboost-test-dev:armhf (1.74.0.3) ... Setting up libxcb-present0:armhf (1.15-1) ... Setting up libcifpp5:armhf (5.0.7.1-1) ... Setting up dh-autoreconf (20) ... Setting up libltdl-dev:armhf (2.4.7-5) ... Setting up libxdmcp-dev:armhf (1:1.1.2-3) ... Setting up gfortran-12 (12.2.0-14) ... Setting up libwebp-dev:armhf (1.2.4-0.2) ... Setting up libxcb-xinerama0:armhf (1.15-1) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:armhf (2.12.1+dfsg-5) ... Setting up libtiff-dev:armhf (4.5.0-6) ... Setting up libxcb-sync1:armhf (1.15-1) ... Setting up shared-mime-info (2.2-1) ... Setting up libxkbcommon-x11-0:armhf (1.5.0-1) ... Setting up libevent-dev (2.1.12-stable-8) ... Setting up libboost-random1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libeigen3-dev (3.4.0-4) ... Setting up libboost-timer1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libboost-numpy1.74-dev (1.74.0+ds1-21) ... Setting up pkg-config:armhf (1.8.1-1) ... Setting up libqt5core5a:armhf (5.15.8+dfsg-10) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up libboost-serialization1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libxcb-dri2-0:armhf (1.15-1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libboost-wave1.74.0:armhf (1.74.0+ds1-21) ... Setting up libdrm2:armhf (2.4.114-1+b1) ... Setting up dwz (0.15-1) ... Setting up libboost-regex1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libnl-3-dev:armhf (3.7.0-0.2+b1) ... Setting up groff-base (1.22.4-10) ... Setting up libqt5dbus5:armhf (5.15.8+dfsg-10) ... Setting up libxcb-randr0:armhf (1.15-1) ... Setting up libboost-stacktrace-dev:armhf (1.74.0.3) ... Setting up libllvm15:armhf (1:15.0.6-4+b1) ... Setting up libxslt1.1:armhf (1.1.35-1) ... Setting up libcurl4:armhf (7.88.1-9) ... Setting up libx11-6:armhf (2:1.8.4-2) ... Setting up libharfbuzz0b:armhf (6.0.0+dfsg-3) ... Setting up libhwloc-dev:armhf (2.9.0-1) ... Setting up libfontconfig1:armhf (2.14.1-4) ... Setting up libboost-locale1.74.0:armhf (1.74.0+ds1-21) ... Setting up libqt5test5:armhf (5.15.8+dfsg-10) ... Setting up libboost-regex-dev:armhf (1.74.0.3) ... Setting up libsm6:armhf (2:1.2.3-1) ... Setting up libfftw3-dev:armhf (3.3.10-1) ... Setting up libqt5concurrent5:armhf (5.15.8+dfsg-10) ... Setting up libavahi-client3:armhf (0.8-10) ... Setting up libboost-timer-dev:armhf (1.74.0.3) ... Setting up libboost-type-erasure1.74.0:armhf (1.74.0+ds1-21) ... Setting up liblbfgsb0:armhf (3.0+dfsg.4-1) ... Setting up libdrm-amdgpu1:armhf (2.4.114-1+b1) ... Setting up libxcb-dri3-0:armhf (1.15-1) ... Setting up libinput10:armhf (1.22.1-1) ... Setting up libx11-xcb1:armhf (2:1.8.4-2) ... Setting up libibverbs1:armhf (44.0-2) ... Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libdrm-nouveau2:armhf (2.4.114-1+b1) ... Setting up libxcb1-dev:armhf (1.15-1) ... Setting up libboost-wave1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libxrender1:armhf (1:0.9.10-1.1) ... Setting up libgbm1:armhf (22.3.6-1+deb12u1) ... Setting up ibverbs-providers:armhf (44.0-2) ... Setting up libdrm-radeon1:armhf (2.4.114-1+b1) ... Setting up openssh-client (1:9.2p1-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:armhf (3.11.2-6) ... Setting up libgl1-mesa-dri:armhf (22.3.6-1+deb12u1) ... Setting up libx11-dev:armhf (2:1.8.4-2) ... Setting up libxext6:armhf (2:1.3.4-1+b1) ... Setting up libboost-random-dev:armhf (1.74.0.3) ... Setting up libboost-wave-dev:armhf (1.74.0.3) ... Setting up dssp (4.2.2-2) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libqt5network5:armhf (5.15.8+dfsg-10) ... Setting up libxxf86vm1:armhf (1:1.1.4-1+b2) ... Setting up libxnvctrl0:armhf (525.85.05-1) ... Setting up libqt5sql5:armhf (5.15.8+dfsg-10) ... Setting up libboost-iostreams1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libnl-route-3-dev:armhf (3.7.0-0.2+b1) ... Setting up libboost-date-time1.74-dev:armhf (1.74.0+ds1-21) ... Setting up qtbase5-dev-tools (5.15.8+dfsg-10) ... Setting up libqt5xml5:armhf (5.15.8+dfsg-10) ... Setting up libegl-mesa0:armhf (22.3.6-1+deb12u1) ... Setting up libxfixes3:armhf (1:6.0.0-2) ... Setting up libboost-graph1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libraqm0:armhf (0.7.0-4.1) ... Setting up libboost-numpy-dev (1.74.0.3) ... Setting up libboost-serialization-dev:armhf (1.74.0.3) ... Setting up libboost-date-time-dev:armhf (1.74.0.3) ... Setting up libxext-dev:armhf (2:1.3.4-1+b1) ... Setting up libcups2:armhf (2.4.2-3) ... Setting up libegl1:armhf (1.6.0-1) ... Setting up cmake (3.25.1-1) ... Setting up libboost-thread1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libxss1:armhf (1:1.2.3-1) ... Setting up libboost-thread-dev:armhf (1.74.0.3) ... Setting up libpython3-stdlib:armhf (3.11.2-1+b1) ... Setting up librdmacm1:armhf (44.0-2) ... Setting up libboost-graph-dev:armhf (1.74.0.3) ... Setting up python3.11 (3.11.2-6) ... Setting up libxft2:armhf (2.3.6-1) ... Setting up libglx-mesa0:armhf (22.3.6-1+deb12u1) ... Setting up libboost-log1.74-dev (1.74.0+ds1-21) ... Setting up libpython3.11:armhf (3.11.2-6) ... Setting up libglx0:armhf (1.6.0-1) ... Setting up libtk8.6:armhf (8.6.13-2) ... Setting up libqt5gui5:armhf (5.15.8+dfsg-10) ... Setting up debhelper (13.11.4) ... Setting up libqt5widgets5:armhf (5.15.8+dfsg-10) ... Setting up python3 (3.11.2-1+b1) ... Setting up libboost-iostreams-dev:armhf (1.74.0.3) ... Setting up libibverbs-dev:armhf (44.0-2) ... Setting up libhwloc-plugins:armhf (2.9.0-1) ... Setting up libqt5help5:armhf (5.15.8-2) ... Setting up libboost-context1.74-dev:armhf (1.74.0+ds1-21) ... Setting up python3-tz (2022.7.1-4) ... Setting up python3-six (1.16.0-4) ... Setting up libqt5printsupport5:armhf (5.15.8+dfsg-10) ... Setting up libboost-fiber1.74-dev:armhf (1.74.0+ds1-21) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-packaging (23.0-1) ... Setting up libgl1:armhf (1.6.0-1) ... Setting up libboost-type-erasure1.74-dev:armhf (1.74.0+ds1-21) ... Setting up python3-pyparsing (3.0.9-1) ... Setting up libpython3.11-dev:armhf (3.11.2-6) ... Setting up python3-brotli (1.0.9-2+b6) ... Setting up python3-cycler (0.11.0-1) ... Setting up python3-kiwisolver (1.4.4-1+b1) ... Setting up libboost-locale1.74-dev:armhf (1.74.0+ds1-21) ... Setting up python3-pyqt5.sip (12.11.1-1) ... Setting up libqt5opengl5:armhf (5.15.8+dfsg-10) ... Setting up python3-lxml:armhf (4.9.2-1+b1) ... Setting up libglx-dev:armhf (1.6.0-1) ... Setting up python3-dateutil (2.8.2-2) ... Setting up libboost-coroutine1.74-dev:armhf (1.74.0+ds1-21) ... Setting up libboost-coroutine-dev:armhf (1.74.0.3) ... Setting up python3-mpmath (1.2.1-2) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-appdirs (1.4.4-3) ... Setting up libboost-log-dev (1.74.0.3) ... Setting up libgl-dev:armhf (1.6.0-1) ... Setting up libboost-fiber-dev:armhf (1.74.0.3) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up dh-python (5.20230130) ... Setting up libfabric1:armhf (1.17.0-3) ... Setting up python3-sympy (1.11.1-1) ... Setting up python3-attr (22.2.0-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4.1) ... Setting up libvulkan-dev:armhf (1.3.239.0-1) ... Setting up libpython3-dev:armhf (3.11.2-1+b1) ... Setting up libqt5designer5:armhf (5.15.8-2) ... Setting up libegl-dev:armhf (1.6.0-1) ... Setting up libpmix2:armhf (4.2.2-1+b1) ... Setting up python3-lz4 (4.0.2+dfsg-1+b2) ... Setting up python3.11-dev (3.11.2-6) ... Setting up python3-unicodedata2 (14.0.0+ds2-1+b2) ... Setting up libopenmpi3:armhf (4.1.4-3+b1) ... Setting up blt (2.5.3+dfsg-4.1) ... Setting up libboost-mpi1.74.0 (1.74.0+ds1-21) ... Setting up python3-tk:armhf (3.11.2-3) ... Setting up libboost-locale-dev:armhf (1.74.0.3) ... Setting up libboost-context-dev:armhf (1.74.0.3) ... Setting up libboost-type-erasure-dev:armhf (1.74.0.3) ... Setting up python3-fs (2.4.16-2) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up libglu1-mesa-dev:armhf (9.0.2-1.1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-contourpy (1.0.7-1+b1) ... Setting up libgles-dev:armhf (1.6.0-1) ... Setting up libboost-graph-parallel1.74.0 (1.74.0+ds1-21) ... Setting up libpmix-dev:armhf (4.2.2-1+b1) ... Setting up openmpi-bin (4.1.4-3+b1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up python3-pyqt5 (5.15.9+dfsg-1) ... Setting up python3-scipy (1.10.1-2) ... Setting up mpi-default-bin (1.14) ... Setting up libboost-python1.74-dev (1.74.0+ds1-21) ... Setting up libboost-python-dev (1.74.0.3) ... Setting up libboost-graph-parallel1.74-dev (1.74.0+ds1-21) ... Setting up qtbase5-dev:armhf (5.15.8+dfsg-10) ... Setting up libopenmpi-dev:armhf (4.1.4-3+b1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/openmpi/include to provide /usr/include/arm-linux-gnueabihf/mpi (mpi-arm-linux-gnueabihf) in auto mode Setting up libboost-mpi-python1.74.0 (1.74.0+ds1-21) ... Setting up libqt5opengl5-dev:armhf (5.15.8+dfsg-10) ... Setting up libboost-graph-parallel-dev (1.74.0.3) ... Setting up mpi-default-dev (1.14) ... Setting up libboost-mpi1.74-dev (1.74.0+ds1-21) ... Setting up libboost-mpi-python1.74-dev (1.74.0+ds1-21) ... Setting up libboost-mpi-python-dev (1.74.0.3) ... Setting up libboost-mpi-dev (1.74.0.3) ... Setting up libboost-all-dev (1.74.0.3) ... Setting up python3-fonttools (4.38.0-1+b1) ... Setting up python3-pil:armhf (9.4.0-1.1+b1) ... Setting up python3-pil.imagetk:armhf (9.4.0-1.1+b1) ... Setting up python3-ufolib2 (0.14.0+dfsg1-1) ... Setting up python3-matplotlib (3.6.3-1+b1) ... Processing triggers for libc-bin (2.36-9) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/openstructure-2.3.1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../openstructure_2.3.1-9_source.changes dpkg-buildpackage: info: source package openstructure dpkg-buildpackage: info: source version 2.3.1-9 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf 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-2.3.1' dh_auto_configure -- -DOPTIMIZE=ON -DUBUNTU_LAYOUT=ON cd obj-arm-linux-gnueabihf && 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_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf -DOPTIMIZE=ON -DUBUNTU_LAYOUT=ON .. -- The CXX compiler identification is GNU 12.2.0 -- The C compiler identification is GNU 12.2.0 -- 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 (found suitable version "3.11.2", minimum required is "3.6") found components: Interpreter Development Development.Module Development.Embed -- Found Boost package: python311 -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: unit_test_framework -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: filesystem system -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: iostreams regex -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: program_options -- Found Boost: /usr/include (found suitable version "1.74.0", minimum required is "1.31") found components: regex -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- 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/arm-linux-gnueabihf/libOpenGL.so -- Found EIGEN: /usr/include/eigen3 (Required is at least version "3.2.0") -- Found SQLITE3: /usr/lib/arm-linux-gnueabihf/libsqlite3.so (Required is at least version "3.7.13") -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.13") -- Found PNG: /usr/lib/arm-linux-gnueabihf/libpng.so (found version "1.6.39") -- Found FFTW: /usr/lib/arm-linux-gnueabihf/libfftw3f.so -- Found TIFF: /usr/lib/arm-linux-gnueabihf/libtiff.so (found version "4.5.0") -- Searching for python module PyQt5 for /usr/bin/python3 -- Found python module PyQt5 -- Searching for python module PyQt5.sip for /usr/bin/python3 -- 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 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) : ON 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_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf make[1]: Leaving directory '/build/openstructure-2.3.1' dh_auto_build cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/openstructure-2.3.1 -B/build/openstructure-2.3.1/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/CMakeFiles /build/openstructure-2.3.1/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/create_stage.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/build.make modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod/CMakeFiles/subst___init__.py.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./__init__.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.dir/build make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.3.1/modules/base/pymod/__init__.py.in -DOUT_FILE=__init__.py -DALL_ADDITIONAL_MODULES=,\'gui\',\'gfx\',\'img\',\'info\' -P /build/openstructure-2.3.1/cmake_support/substitute.cmake cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./lga.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./lga.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./hbplus.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./hbplus.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/bin cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./msms.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./msms.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./tmtools.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./tmtools.py [ 0%] Built target subst___init__.py make -f modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build.make modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./dssp.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./dssp.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build.make modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/conop/./__init__.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./clustalw.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./clustalw.py [ 0%] Built target create_stage 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/db/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod/CMakeFiles/ost_db_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/pymod/./cleanup.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/conop/./cleanup.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./utils.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./utils.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/db/./__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./naccess.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./naccess.py [ 0%] Built target ost_conop_pymod 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-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./hhblits.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./hhblits.py [ 0%] Built target ost_db_pymod make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build.make modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/geom/./__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./hhblits2.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./hhblits2.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./hhblits3.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./hhblits3.py [ 0%] Built target ost_geom_pymod make -f modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build.make modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_s.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen_s.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./blast.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./blast.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_s.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen_s.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build.make modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./cadscore.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./cadscore.py make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gfx/./__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./kclust.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./kclust.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./ialign.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./ialign.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_spec.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_spec.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/pymod/./py_gfx_obj.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gfx/./py_gfx_obj.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/pymod/./mmseqs2.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./mmseqs2.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_octree.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_octree.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 0%] Built target ost_gfx_pymod make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/octree_isocont.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/octree_isocont.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/ost_gui_headers.dir/DependInfo.cmake --color= [ 0%] Built target ost_bindings_pymod 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/share /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share/CMakeFiles/scene_icons.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/cartoon_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/cartoon_renderer.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/share/CMakeFiles/scene_icons.dir/build.make modules/gui/share/CMakeFiles/scene_icons.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/add_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/add_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/custom_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/custom_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/cpk_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/cpk_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/close_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/close_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_option_group.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_option_group.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/debug_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/debug_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/critical_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/critical_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/simple_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/simple_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/delete_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/delete_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/sline_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/sline_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/distance_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/distance_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/selection_tool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/selection_tool.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/find_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/find_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/trace_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/measure_tool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/measure_tool.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/line_trace_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/line_trace_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/information_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/information_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_option.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_option.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/backbone_trace.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/backbone_trace.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/map_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/map_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_manager.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/entity_detail.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_detail.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/menubar_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/menubar_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_options_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/entity_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/rigid_body_manipulator_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/rigid_body_manipulator_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/manipulator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/manipulator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/trace_renderer_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/selection_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/selection_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_options_win.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_win.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/show_sidebar_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/show_sidebar_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/connect_renderer_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/connect_renderer_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/mouse_event.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/site_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/site_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/mapped_property.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/mapped_property.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/map_tool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/map_tool.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/split_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/split_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/entity_renderer_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/align_properties_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/align_properties_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/warning_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/warning_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/tabulated_trig.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/tabulated_trig.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_row.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/base_row.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/icons/refresh.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/refresh.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/background_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/background_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/fast_spheres.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/fast_spheres.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/render_options.hh [ 0%] Built target scene_icons cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/conservation_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/conservation_painter.hh 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/share /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share/CMakeFiles/gui_images.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/painter.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/share/CMakeFiles/gui_images.dir/build.make modules/gui/share/CMakeFiles/gui_images.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/line_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/line_render_options.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/share/images/logo-small.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/images/logo-small.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/custom_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/custom_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/secstr_row.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/secstr_row.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_secstr_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_secstr_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/cpk_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/cpk_render_options.hh [ 0%] Built target gui_images make -f modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_selection_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_selection_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/simple_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/simple_render_options.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/sline_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/sline_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_text_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_text_painter.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/line_trace_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/line_trace_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/color_options_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/color_options_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_delegate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_delegate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/cartoon_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/cartoon_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/color_select_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/color_select_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_model.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/trace_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/trace_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_row.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_row.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/combo_options_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/combo_options_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_search_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_search_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/cpk_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/cpk_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_element_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/by_element_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_table_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_table_view.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_chain_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/by_chain_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/custom_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/custom_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_viewer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/uniform_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/uniform_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/gradient_editor_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/gradient_editor_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/tick_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/tick_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/gradient_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/gradient_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/gradient_info_handler.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/gradient_info_handler.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/title_row.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/title_row.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/entity_view_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/entity_view_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/gradient_list_model.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/gradient_list_model.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/alignment_view_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/alignment_view_object.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/basic_gradient_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/basic_gradient_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/gradient_preset_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/gradient_preset_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_view_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/base_view_object.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/gradient_level_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/gradient_level_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/hsc_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/hsc_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_view_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_view_object.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/map_handle_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/map_handle_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/immutable_gradient_info_handler.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/immutable_gradient_info_handler.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/immutable_preset_info_handler.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/immutable_preset_info_handler.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/main_thread_runner.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/main_thread_runner.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./render_pass.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./render_pass.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/init_inspector.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/init_inspector.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./bitmap_io.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./bitmap_io.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/inspector_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/inspector_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./collada_exporter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./collada_exporter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/completer_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/completer_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/map_level_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/map_level_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./color.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./color.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/dir_model.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/dir_model.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/preset.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./entity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/gutter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/gutter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/remote.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/remote.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/path_completer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/path_completer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./entity_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./entity_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/preset_editor_list_model.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_editor_list_model.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_context_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_context_parser.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/preset_editor_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_editor_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gl_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gl_helper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_completer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_completer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/preset_info_handler.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_info_handler.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/preset_list_model.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_list_model.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/preset_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_node_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/render_mode_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/render_mode_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_node_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node_visitor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_tokenizer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_tokenizer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/render_op.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/render_op.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_object_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/render_options_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/render_options_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_syntax_highlighter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_syntax_highlighter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/scene_observer_impl.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/scene_observer_impl.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_object_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/text_logger.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_prim.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_prim.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/scene_selection_helper.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/scene_selection_helper.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./symmetry_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./symmetry_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/simple_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/simple_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_text_document_layout.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_text_document_layout.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_test_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_test_object.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/shell_history.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/shell_history.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./glwin_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./glwin_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/sline_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/sline_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/state_machine.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/state_machine.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./input.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./input.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/toolbar_options_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/toolbar_options_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./prim_list.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./prim_list.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/state.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/state.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/transition.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/transition.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/trace_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/trace_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./scene.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./scene.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/tube_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/tube_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/transition_guard.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/transition_guard.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/uniform_color_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/uniform_color_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/button_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/button_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./selection.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./selection.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/visibility_op.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/visibility_op.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/drop_box.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/drop_box.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./surface.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./surface.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/line_trace_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/line_trace_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/wireframe_widget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/wireframe_widget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/panel_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./texture.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./texture.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/query_editor.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/query_editor.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/panel_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_manager.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./vertex_array.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./vertex_array.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/bottom_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/bottom_bar.hh [ 0%] Built target ost_gui_scene_pymod make -f modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./vertex_array_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./vertex_array_helper.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/button_box.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/button_box.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/dng/__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./scene_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./scene_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/dng/termuse.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/termuse.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gl_include.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gl_include.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/event_button.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/event_button.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/dng/superpositiondialog.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/superpositiondialog.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./glext_include.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./glext_include.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/panel_widget_container.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_widget_container.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./render_mode.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./render_mode.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/dng/init.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/init.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/panel_bar_widget_holder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_bar_widget_holder.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./material.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./material.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/dng/menu.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/menu.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/side_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/side_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gradient.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gradient.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gradient_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gradient_manager.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/splitter_panel_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/splitter_panel_bar.hh [ 0%] Built target ost_gui_dng_pymod make -f modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/tabbed_panel_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/tabbed_panel_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./module_config.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/context_menu.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/context_menu.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./primitives.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./primitives.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/./init_context_menu.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./init_context_menu.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/current_selection_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/current_selection_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./povray_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./povray_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/./init_menubar.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./init_menubar.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/custom_part_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/custom_part_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./povray.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./povray.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/./init_spacenav.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./init_spacenav.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/entity_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/entity_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./exporter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./exporter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/entity_part_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/entity_part_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/./init_splash.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./init_splash.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./exporter_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./exporter_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/gfx_scene_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/gfx_scene_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/./trajectory_viewer.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./trajectory_viewer.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gost_exporter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gost_exporter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/label_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/label_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/./helpwidget.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./helpwidget.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./color_ops/map_handle_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_handle_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/root_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/root_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/./table.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./table.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./map_iso.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_iso.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/./gosty_startup.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./gosty_startup.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/render_mode_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/render_mode_node.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./map_slab.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_slab.hh [ 0%] Built target ost_gui_pymod cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/render_modes_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/render_modes_node.hh make -f modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build.make modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./map_iso_prop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_iso_prop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_node.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/img/./__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh [ 0%] Built target ost_gfx_headers 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 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win_model.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 0%] Built target ost_img_pymod make -f modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build.make modules/info/pymod/CMakeFiles/ost_info_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/info/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod/CMakeFiles/ost_info_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/messages/message_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/message_widget.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/img/alg/./__init__.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/messages/message_box_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/message_box_widget.hh make -f modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build.make modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/info/./__init__.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/messages/log_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/log_reader.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 0%] Built target ost_img_alg_pymod 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod/CMakeFiles/ost_io_pymod.dir/DependInfo.cmake --color= [ 0%] Built target ost_info_pymod make -f modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build.make modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/argand.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/argand.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build.make modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/./__init__.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build.make modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/io/./__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer_panel.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/pymod/./remote.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/io/./remote.py [ 0%] Built target ost_mol_pymod 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 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer_panel_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/pymod/./repository.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/io/./repository.py make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/draw_overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/draw_overlay.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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 make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./__init__.py [ 0%] Built target ost_io_pymod cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/drawing_functions.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/drawing_functions.hh 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/fft_panel.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/fft_panel.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/pymod/./views.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./views.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build.make modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/./__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/info_panel.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/info_panel.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/pymod/./superpose.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./superpose.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/img2qt.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/img2qt.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/pymod/./qsscoring.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./qsscoring.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/pymod/./trajectory_analysis.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./trajectory_analysis.py [ 0%] Built target ost_seq_pymod cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/mask_overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/mask_overlay.hh 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 make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/pymod/./structure_analysis.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./structure_analysis.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/pymod/./helix_kinks.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./helix_kinks.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/null_overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/null_overlay.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build.make modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/pymod/./__init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/alg/./__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/pymod/./hbond.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./hbond.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/pymod/./mat.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/alg/./mat.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/pymod/./renumber.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/alg/./renumber.py [ 0%] Built target ost_mol_alg_pymod make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost_startup.py.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/pymod/./aaindex.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/alg/./aaindex.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_base_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_base_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/pymod/aaindex1 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/aaindex/aaindex1 make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.3.1/scripts/ost_startup.py.in -DOUT_FILE=ost_startup.py -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.11.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.11/dist-packages/ -P /build/openstructure-2.3.1/cmake_support/substitute.cmake cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/pymod/aaindex2 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/aaindex/aaindex2 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_fw.hh [ 0%] Built target subst_ost_startup.py make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost_config.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/pymod/aaindex3 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/aaindex/aaindex3 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager_gui.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_gui.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.3.1/scripts/ost_config.in -DOUT_FILE=ost_config -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.11.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.11/dist-packages/ -P /build/openstructure-2.3.1/cmake_support/substitute.cmake [ 0%] Built target ost_seq_alg_pymod cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay.hh make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay_base.hh [ 0%] Built target subst_ost_config make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/depend make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_dng.dir/DependInfo.cmake --color= make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.3.1/scripts/ost.in -DOUT_FILE=ost -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.11.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.11/dist-packages/ -P /build/openstructure-2.3.1/cmake_support/substitute.cmake cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/strategies.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/strategies.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.3.1/scripts/dng.in -DOUT_FILE=dng -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.11.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.11/dist-packages/ -P /build/openstructure-2.3.1/cmake_support/substitute.cmake cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/strategies_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/strategies_fw.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/viewer_normalizer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/viewer_normalizer.hh [ 0%] Built target subst_ost make -f actions/CMakeFiles/actions.dir/build.make actions/CMakeFiles/actions.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/actions /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/actions /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/actions/CMakeFiles/actions.dir/DependInfo.cmake --color= [ 0%] Built target subst_dng make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src/CMakeFiles/ost_geom_headers.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f actions/CMakeFiles/actions.dir/build.make actions/CMakeFiles/actions.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/actions && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/actions/ost-compare-structures /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec/ost-compare-structures make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/export_helper/vector.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/export_helper/vector.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./file_browser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_browser.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./def.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./def.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./file_type_dialog.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_type_dialog.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./exc.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./exc.hh [ 0%] Built target actions cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./file_viewer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_viewer.hh make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config/CMakeFiles/ost_config_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./geom.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./geom.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/config/./base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./gl_canvas.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gl_canvas.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./mat.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/config/./config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./gl_win.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gl_win.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./mat2.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat2.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/config/./dllexport.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./dllexport.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./mat3.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat3.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./scene_menu.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./scene_menu.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./mat4.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat4.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/config/./version.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./version.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./gosty_app.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gosty_app.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec2.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec2.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./admin.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./admin.hh [ 0%] Built target ost_config_headers make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/ost_base_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec3.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec3.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/export_helper/generic_property_def.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/generic_property_def.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./main.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec4.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec4.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/export_helper/pair_to_tuple_conv.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/pair_to_tuple_conv.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vecmat_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/export_helper/vec_to_list_conv.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/vec_to_list_conv.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./main_area.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main_area.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./perspective.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./perspective.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vecmat2_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat2_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/test_utils/compare_files.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/test_utils/compare_files.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./scene_selection.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./scene_selection.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./generic_property.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./generic_property.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vecmat3_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat3_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./main_window.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main_window.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./integrity_error.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./integrity_error.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vecmat4_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat4_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./invalid_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./invalid_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./dock_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./dock_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./circular_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./circular_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./dock_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./dock_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./ptr_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./ptr_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./constants.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./constants.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./thin_splitter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./thin_splitter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./log.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./log.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./log_sink.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./log_sink.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite2.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite2.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./profile.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./profile.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget_geom_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_geom_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite3.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite3.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./dyn_cast.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./dyn_cast.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget_pool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_pool.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./stdint.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./stdint.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./stdint_msc.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./stdint_msc.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite2_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite2_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget_registry.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_registry.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./range.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./range.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite3_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite3_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget_state_saver.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_state_saver.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./aligned_cuboid.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./aligned_cuboid.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./file_loader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_loader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec_mat_predicates.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec_mat_predicates.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./units.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./units.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./quat.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./quat.hh [ 0%] Built target ost_gui_headers make -f modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build.make modules/base/pymod/CMakeFiles/ost_base_pymod.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod/CMakeFiles/ost_base_pymod.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./message.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./message.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./transform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./transform.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./platform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./platform.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build.make modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./point_cloud.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./point_cloud.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/pymod/./settings.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./settings.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./string_ref.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./string_ref.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/pymod/./stutil.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./stutil.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./pod_vector.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./pod_vector.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/pymod/./table.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./table.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/pymod/./table_selector.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./table_selector.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./fixed_string.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./fixed_string.hh [ 0%] Built target ost_geom_headers make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./tri_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./tri_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/pymod/./xmlrunner.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./xmlrunner.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./boost_filesystem_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./boost_filesystem_helper.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/pymod/./testutils.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./testutils.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./paged_array.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./paged_array.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different __init__.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/__init__.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_impl_fw.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_list_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh [ 0%] Built target ost_base_pymod make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_list_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/info/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src/CMakeFiles/ost_info_headers.dir/DependInfo.cmake --color= [ 0%] Built target ost_base_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_list_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./sequence_list.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_list.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/pointer_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./sequence_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_group.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_group.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_error.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_error.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./alignment_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./alignment_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_prop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_prop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./sequence_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/chain_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./aligned_region.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_region.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_group.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_group.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/chain_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./aligned_column.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_column.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/connector_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_item.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_item.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./aligned_column_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_column_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/connector_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./invalid_sequence.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./invalid_sequence.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/dihedral.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/dihedral.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./views_from_sequences.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./views_from_sequences.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_path.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_path.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./profile_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./profile_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_set.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_set.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/fragment_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/fragment_impl.hh [ 0%] Built target ost_seq_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/fragment_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/fragment_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_visitor.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/src/./wrap_tmalign.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/bindings/./wrap_tmalign.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/query_ast.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_ast.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_verbose_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_verbose_visitor.hh [ 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/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/query_ast_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_ast_fw.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/ost_conop_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./item_type.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./item_type.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/query_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_impl.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./conop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./conop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./geom_info_conversion.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./geom_info_conversion.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./processor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./processor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/query_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./item_type_cast.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./item_type_cast.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./amino_acids.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./amino_acids.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/residue_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./diag.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./diag.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./model_check.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./model_check.hh [ 0%] Built target ost_info_headers cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/residue_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl_fw.hh make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/db/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src/CMakeFiles/ost_db_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./heuristic.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./heuristic.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/surface_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/surface_impl.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./sqlite_wrap.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./sqlite_wrap.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./compound.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/surface_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/surface_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./sqlite_conv.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./sqlite_conv.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./compound_lib.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound_lib.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/torsion_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./linear_indexer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./linear_indexer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/torsion_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./rule_based.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./rule_based.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./binary_container.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./binary_container.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./atom_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./minimal_compound_lib.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./minimal_compound_lib.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./extract_data_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./extract_data_helper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./atom_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./compound_lib_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound_lib_base.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./atom_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_view.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./ring_finder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./ring_finder.hh [ 0%] Built target ost_db_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./bond_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bond_handle.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./alignment_opts.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./alignment_opts.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./bond_table.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bond_table.hh [ 0%] Built target ost_conop_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src/CMakeFiles/ost_img_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./clip_alignment.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./clip_alignment.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chain_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_base.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./conservation.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./conservation.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/raster_image/raster_image.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/raster_image/raster_image.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./contact_prediction_score.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./contact_prediction_score.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chain_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/dispatch.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/dispatch.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./contact_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./contact_weight_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chain_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_view.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./distance_map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./distance_map.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chain_type.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_type.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./entropy.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./entropy.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chem_class.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chem_class.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chem_type.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chem_type.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./global_align.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./global_align.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_base_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_base_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./coord_group.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_group.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./ins_del.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./ins_del.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_def.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./coord_source.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_source.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./local_align.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./local_align.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_factory.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_factory.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./merge_pairwise_alignments.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./merge_pairwise_alignments.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./in_mem_coord_source.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./in_mem_coord_source.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_frequency_domain.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_frequency_domain.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_half_frequency_domain.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_half_frequency_domain.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./coord_frame.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_frame.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./pair_subst_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./pair_subst_weight_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./editor_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./editor_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_spatial_domain.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_spatial_domain.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./semiglobal_align.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./semiglobal_align.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./editor_type_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./editor_type_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_visitor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./sequence_identity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./sequence_identity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_algorithm.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_algorithm.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./mol.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./mol.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./sequence_similarity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./sequence_similarity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_visitor_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_visitor_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./subst_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./subst_weight_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/index.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/index.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./variance_map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./variance_map.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./data/default_contact_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./default_contact_weight_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/type_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/type_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./data/default_pair_subst_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./default_pair_subst_weight_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/value_holder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/value_holder.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./hmm_pseudo_counts.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./hmm_pseudo_counts.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./hmm_score.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./hmm_score.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_observer_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_observer_fw.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./algorithm.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./algorithm.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_property_mapper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_property_mapper.hh [ 0%] Built target ost_seq_alg_headers make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./circle_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./circle_mask.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_view.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./composite_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./composite_mask.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_visitor.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./anisotropic.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./anisotropic.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./data_algorithm.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_algorithm.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_visitor_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_visitor_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./auto_correlate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./auto_correlate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./data_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./handle_type_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./handle_type_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./clear.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./clear.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./ics_editor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./ics_editor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./data_types.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_types.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./clip_min_max.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./clip_min_max.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./not_connected_error.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./not_connected_error.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./data.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./data.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./conjugate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./conjugate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./property_id.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./property_id.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./debug.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./debug.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./convolute.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./convolute.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./query.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./correlate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./correlate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./dllexport.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./dllexport.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./query_error.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_error.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./extent_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./cross_correlate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./cross_correlate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./query_state.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_state.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./density_slice.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./density_slice.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./residue_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./extent_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./dft.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./dft.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./residue_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./residue_prop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_prop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./extent.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fft.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fft.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./residue_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_view.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fftw_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fftw_helper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_factory.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_factory.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./sec_structure.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./sec_structure.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fill.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fill.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_handle_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_handle_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./filter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./filter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./spatial_organizer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./spatial_organizer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fourier_filters.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fourier_filters.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./surface.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./gaussian_gradient_magnitude.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian_gradient_magnitude.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./surface_builder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_builder.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_list.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_list.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./gaussian.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./builder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./builder.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./gaussian_laplacian.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian_laplacian.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_state_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_state_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./surface_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./highest_peak_search_3d.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./highest_peak_search_3d.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_state.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_state.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./surface_prop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_prop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./histogram.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./histogram.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./torsion_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./torsion_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./inverted_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./inverted_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./transfer_connectivity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./transfer_connectivity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./line_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./line_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./map.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./query_view_wrapper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_view_wrapper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_base_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_base_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./view_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./local_sigma_threshold.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./local_sigma_threshold.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./view_type_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_type_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./mask_image.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./mask_image.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./view_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./negate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./negate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./xcs_editor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./xcs_editor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./normalizer_factory.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./normalizer_factory.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_visitor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./bounding_box.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bounding_box.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./norm.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./transform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./transform.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./normalizer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./normalizer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./normalizer_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./normalizer_fw.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./norm_linear.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_linear.hh [ 0%] Built target ost_mol_headers make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./normalizer_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./normalizer_impl.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src/CMakeFiles/ost_io_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./norm_log.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_log.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./null_data.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./null_data.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./observable.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./observable.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./norm_od.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_od.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/chemdict_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./paste_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./paste_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./power_spectrum.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./power_spectrum.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./peak.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./peak.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/star_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/star_parser.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./phase.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./phase.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./randomize.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./randomize.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./physical_units.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./physical_units.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/mmcif_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./pixel_sampling.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./pixel_sampling.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./smooth_mask_image.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./smooth_mask_image.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/mmcif_info.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_info.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./stat.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./point_list.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./point_list.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/io_profile.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/io_profile.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./stat_accumulator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat_accumulator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./point.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./point.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/dcd_io.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/dcd_io.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./stat_min_max.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat_min_max.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_crd_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_crd_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./polygon_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./polygon_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./threshold.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./threshold.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pqr_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_pqr_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./progress.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./progress.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transcendentals.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transcendentals.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./size.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./size.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mae_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_mae_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transform.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./spherical_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./spherical_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transform_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transform_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mmcif_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_mmcif_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./util.cc /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./util.cc cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./alg_transform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_transform.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/pdb_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./alg_mirror.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_mirror.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./value_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./value_util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./vecmat.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./vecmat.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pdb_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_pdb_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./alg_shift.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_shift.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_info_convert.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_info_convert.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./discrete_shrink.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./discrete_shrink.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/pdb_writer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_writer.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transformation_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transformation_base.hh [ 0%] Built target ost_img_headers cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_sdf_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_sdf_handler.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 make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transformations.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transformations.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/sdf_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fractional_shift.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fractional_shift.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/sdf_writer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_writer.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./svd_superpose.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./svd_superpose.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/save_entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/save_entity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./sec_structure_segments.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./sec_structure_segments.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/load_entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/load_entity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./polar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./polar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./local_dist_diff_test.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./local_dist_diff_test.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./line_average.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./line_average.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/surface_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/surface_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./distance_test_common.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./distance_test_common.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./rscrosscorr.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./rscrosscorr.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/load_surface.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/load_surface.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./distance_rmsd_test.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./distance_rmsd_test.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./superpose_frames.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./superpose_frames.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/surface_io_msms_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/surface_io_msms_handler.hh [ 0%] Built target ost_img_alg_headers make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config/CMakeFiles/ost_config.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./filter_clashes.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./filter_clashes.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/pdb_str.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_str.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'modules/config/CMakeFiles/ost_config.dir/build'. make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./construct_cbeta.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./construct_cbeta.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/stereochemical_params_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/stereochemical_params_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./clash_score.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./clash_score.hh [ 0%] Built target ost_config make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/omf.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/omf.hh make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./trajectory_analysis.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./trajectory_analysis.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src/CMakeFiles/ost_geom.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/load_map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/load_map.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./structure_analysis.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./structure_analysis.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_df3_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_df3_handler.hh [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat2.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/mat2.cc.o -MF CMakeFiles/ost_geom.dir/mat2.cc.o.d -o CMakeFiles/ost_geom.dir/mat2.cc.o -c /build/openstructure-2.3.1/modules/geom/src/mat2.cc cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/image_format.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/image_format.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./consistency_checks.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./consistency_checks.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_dx_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dx_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./pdbize.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./pdbize.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_spi_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_spi_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./adjacency_bitmap.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./adjacency_bitmap.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_situs_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_situs_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./consistency_checks.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./consistency_checks.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_mrc_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_mrc_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./contact_overlap.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./contact_overlap.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_dat_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dat_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./domain_find.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./domain_find.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_ipl_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_ipl_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./similarity_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./similarity_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_jpk_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./accessibility.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./accessibility.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_nanoscope_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_nanoscope_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./sec_struct.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./sec_struct.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_png_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_png_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./nonstandard.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./nonstandard.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_dm3_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dm3_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./molck.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./molck.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_tiff_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./find_membrane.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./find_membrane.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/tiff_util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./entity_to_density.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./entity_to_density.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/jpk_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/jpk_util.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/sequence_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh [ 0%] Built target ost_mol_alg_headers cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/fasta_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/fasta_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/pir_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pir_io_handler.hh [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/mat3.cc.o -MF CMakeFiles/ost_geom.dir/mat3.cc.o.d -o CMakeFiles/ost_geom.dir/mat3.cc.o -c /build/openstructure-2.3.1/modules/geom/src/mat3.cc cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/promod_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/promod_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/profile_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/profile_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/hhm_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/hhm_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/pssm_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pssm_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/clustal_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/clustal_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/load.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/load.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/save.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/save.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./binary_data_sink.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./binary_data_sink.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./io_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_manager.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./binary_data_source.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./binary_data_source.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./container_serialization.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./container_serialization.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./swap_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./swap_util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./io_utils.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_utils.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./io_exception.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_exception.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./convert.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./convert.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./converting_streams.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./converting_streams.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./formatted_line.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./formatted_line.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/chemdict_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./chemdict_parser.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/star_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./star_parser.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/mmcif_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/mmcif_info.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_info.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/io_profile.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_profile.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/dcd_io.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./dcd_io.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_crd_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_crd_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_pqr_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_pqr_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_mae_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_mae_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_mmcif_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_mmcif_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/pdb_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_pdb_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_pdb_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/pdb_writer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_writer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_sdf_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_sdf_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/sdf_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/sdf_writer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_writer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/save_entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./save_entity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/load_entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_entity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/surface_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./surface_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/load_surface.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_surface.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/surface_io_msms_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./surface_io_msms_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/pdb_str.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_str.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/stereochemical_params_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./stereochemical_params_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/omf.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./omf.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/sequence_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./sequence_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/fasta_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./fasta_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/pir_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pir_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/promod_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./promod_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/profile_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./profile_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/hhm_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./hhm_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/pssm_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pssm_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/clustal_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./clustal_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/load.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./load.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/save.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./save.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/load_map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_map.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_df3_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_df3_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/image_format.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./image_format.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_dx_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dx_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_spi_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_spi_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_situs_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_situs_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_mrc_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_mrc_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_dat_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dat_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_ipl_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_ipl_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_jpk_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_jpk_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_nanoscope_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_nanoscope_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_png_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_png_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_dm3_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dm3_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_tiff_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_tiff_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/tiff_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./tiff_util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/jpk_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./jpk_util.hh make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 0%] Built target ost_io_headers [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat4.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/mat4.cc.o -MF CMakeFiles/ost_geom.dir/mat4.cc.o.d -o CMakeFiles/ost_geom.dir/mat4.cc.o -c /build/openstructure-2.3.1/modules/geom/src/mat4.cc [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vec3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/vec3.cc.o -MF CMakeFiles/ost_geom.dir/vec3.cc.o.d -o CMakeFiles/ost_geom.dir/vec3.cc.o -c /build/openstructure-2.3.1/modules/geom/src/vec3.cc [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat2_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/vecmat2_op.cc.o -MF CMakeFiles/ost_geom.dir/vecmat2_op.cc.o.d -o CMakeFiles/ost_geom.dir/vecmat2_op.cc.o -c /build/openstructure-2.3.1/modules/geom/src/vecmat2_op.cc [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat3_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/vecmat3_op.cc.o -MF CMakeFiles/ost_geom.dir/vecmat3_op.cc.o.d -o CMakeFiles/ost_geom.dir/vecmat3_op.cc.o -c /build/openstructure-2.3.1/modules/geom/src/vecmat3_op.cc [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat4_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/vecmat4_op.cc.o -MF CMakeFiles/ost_geom.dir/vecmat4_op.cc.o.d -o CMakeFiles/ost_geom.dir/vecmat4_op.cc.o -c /build/openstructure-2.3.1/modules/geom/src/vecmat4_op.cc [ 0%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite2.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/composite2.cc.o -MF CMakeFiles/ost_geom.dir/composite2.cc.o.d -o CMakeFiles/ost_geom.dir/composite2.cc.o -c /build/openstructure-2.3.1/modules/geom/src/composite2.cc [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/composite3.cc.o -MF CMakeFiles/ost_geom.dir/composite3.cc.o.d -o CMakeFiles/ost_geom.dir/composite3.cc.o -c /build/openstructure-2.3.1/modules/geom/src/composite3.cc In file included from /build/openstructure-2.3.1/modules/geom/src/composite2.hh:27, from /build/openstructure-2.3.1/modules/geom/src/composite2.cc:23: /build/openstructure-2.3.1/modules/geom/src/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/geom/src/def.hh:26, from /build/openstructure-2.3.1/modules/geom/src/composite2.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/geom/src/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite2_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/composite2_op.cc.o -MF CMakeFiles/ost_geom.dir/composite2_op.cc.o.d -o CMakeFiles/ost_geom.dir/composite2_op.cc.o -c /build/openstructure-2.3.1/modules/geom/src/composite2_op.cc /build/openstructure-2.3.1/modules/geom/src/composite3.cc: In member function 'geom::Quat geom::Rotation3::GetQuat() const': /build/openstructure-2.3.1/modules/geom/src/composite3.cc:218:27: note: parameter passing for argument of type 'geom::Quat' when C++17 is enabled changed to match C++14 in GCC 10.1 218 | Quat Rotation3::GetQuat() const | ^~~~~ [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite3_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/composite3_op.cc.o -MF CMakeFiles/ost_geom.dir/composite3_op.cc.o.d -o CMakeFiles/ost_geom.dir/composite3_op.cc.o -c /build/openstructure-2.3.1/modules/geom/src/composite3_op.cc In file included from /build/openstructure-2.3.1/modules/geom/src/composite2.hh:27, from /build/openstructure-2.3.1/modules/geom/src/composite2_op.hh:24, from /build/openstructure-2.3.1/modules/geom/src/composite2_op.cc:24: /build/openstructure-2.3.1/modules/geom/src/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/geom/src/composite2_op.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/geom/src/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/quat.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/quat.cc.o -MF CMakeFiles/ost_geom.dir/quat.cc.o.d -o CMakeFiles/ost_geom.dir/quat.cc.o -c /build/openstructure-2.3.1/modules/geom/src/quat.cc [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/transform.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/transform.cc.o -MF CMakeFiles/ost_geom.dir/transform.cc.o.d -o CMakeFiles/ost_geom.dir/transform.cc.o -c /build/openstructure-2.3.1/modules/geom/src/transform.cc [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o -MF CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o.d -o CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o -c /build/openstructure-2.3.1/modules/geom/src/aligned_cuboid.cc /build/openstructure-2.3.1/modules/geom/src/quat.cc: In function 'geom::Quat geom::{anonymous}::extract_from_rotmat(const geom::Mat3&)': /build/openstructure-2.3.1/modules/geom/src/quat.cc:185:41: note: parameter passing for argument of type 'geom::Quat' when C++17 is enabled changed to match C++14 in GCC 10.1 185 | Quat extract_from_rotmat(const Mat3& rot) | ^ [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/point_cloud.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/point_cloud.cc.o -MF CMakeFiles/ost_geom.dir/point_cloud.cc.o.d -o CMakeFiles/ost_geom.dir/point_cloud.cc.o -c /build/openstructure-2.3.1/modules/geom/src/point_cloud.cc [ 1%] Linking CXX shared library ../../../stage/lib/libost_geom.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_geom.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_geom.so.2.3 -o ../../../stage/lib/libost_geom.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_geom.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3 ../../../stage/lib/libost_geom.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 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-2.3.1/obj-arm-linux-gnueabihf' make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/ost_base.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod/CMakeFiles/_ost_geom.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 1%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/generic_property.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/generic_property.cc.o -MF CMakeFiles/ost_base.dir/generic_property.cc.o.d -o CMakeFiles/ost_base.dir/generic_property.cc.o -c /build/openstructure-2.3.1/modules/base/src/generic_property.cc [ 1%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/log.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/log.cc.o -MF CMakeFiles/ost_base.dir/log.cc.o.d -o CMakeFiles/ost_base.dir/log.cc.o -c /build/openstructure-2.3.1/modules/base/src/log.cc [ 1%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec2.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec2.cc.o -MF CMakeFiles/_ost_geom.dir/export_vec2.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vec2.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_vec2.cc [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/log_sink.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/log_sink.cc.o -MF CMakeFiles/ost_base.dir/log_sink.cc.o.d -o CMakeFiles/ost_base.dir/log_sink.cc.o -c /build/openstructure-2.3.1/modules/base/src/log_sink.cc [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/profile.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/profile.cc.o -MF CMakeFiles/ost_base.dir/profile.cc.o.d -o CMakeFiles/ost_base.dir/profile.cc.o -c /build/openstructure-2.3.1/modules/base/src/profile.cc [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/units.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/units.cc.o -MF CMakeFiles/ost_base.dir/units.cc.o.d -o CMakeFiles/ost_base.dir/units.cc.o -c /build/openstructure-2.3.1/modules/base/src/units.cc [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/string_ref.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/string_ref.cc.o -MF CMakeFiles/ost_base.dir/string_ref.cc.o.d -o CMakeFiles/ost_base.dir/string_ref.cc.o -c /build/openstructure-2.3.1/modules/base/src/string_ref.cc [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/platform.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/platform.cc.o -MF CMakeFiles/ost_base.dir/platform.cc.o.d -o CMakeFiles/ost_base.dir/platform.cc.o -c /build/openstructure-2.3.1/modules/base/src/platform.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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_vec2.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/message.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/message.cc.o -MF CMakeFiles/ost_base.dir/message.cc.o.d -o CMakeFiles/ost_base.dir/message.cc.o -c /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o -MF CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o.d -o CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o -c /build/openstructure-2.3.1/modules/base/src/test_utils/compare_files.cc [ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_vecmat2_op.cc [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o -MF CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o.d -o CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o -c /build/openstructure-2.3.1/modules/base/src/boost_filesystem_helper.cc [ 2%] Linking CXX shared library ../../../stage/lib/libost_base.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_base.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_base.so.2.3 -o ../../../stage/lib/libost_base.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_base.so.2.3 ../../../stage/lib/libost_base.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 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[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/info/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src/CMakeFiles/ost_info.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 2%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_impl.cc.o -MF CMakeFiles/ost_info.dir/info_impl.cc.o.d -o CMakeFiles/ost_info.dir/info_impl.cc.o -c /build/openstructure-2.3.1/modules/info/src/info_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/info/src/info_impl.hh:41, from /build/openstructure-2.3.1/modules/info/src/info_impl.cc:37: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/info/src/info_impl.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_vecmat2_op.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec3.cc.o -MF CMakeFiles/_ost_geom.dir/export_vec3.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vec3.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_vec3.cc [ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_vecmat3_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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_handle.cc.o -MF CMakeFiles/ost_info.dir/info_handle.cc.o.d -o CMakeFiles/ost_info.dir/info_handle.cc.o -c /build/openstructure-2.3.1/modules/info/src/info_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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_vec3.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_vecmat3_op.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/info/src/info_group.hh:33, from /build/openstructure-2.3.1/modules/info/src/info.hh:32, from /build/openstructure-2.3.1/modules/info/src/info_handle.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/info/src/info_handle.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec4.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec4.cc.o -MF CMakeFiles/_ost_geom.dir/export_vec4.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vec4.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_vec4.cc [ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_group.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_group.cc.o -MF CMakeFiles/ost_info.dir/info_group.cc.o.d -o CMakeFiles/ost_info.dir/info_group.cc.o -c /build/openstructure-2.3.1/modules/info/src/info_group.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/info/src/info_group.hh:33, from /build/openstructure-2.3.1/modules/info/src/info.hh:32, from /build/openstructure-2.3.1/modules/info/src/info_group.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/modules/info/src/info_handle.hh:31, from /build/openstructure-2.3.1/modules/info/src/info.hh:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_vec4.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_item.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_item.cc.o -MF CMakeFiles/ost_info.dir/info_item.cc.o.d -o CMakeFiles/ost_info.dir/info_item.cc.o -c /build/openstructure-2.3.1/modules/info/src/info_item.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_vecmat4_op.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/wrap_geom.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/wrap_geom.cc.o -MF CMakeFiles/_ost_geom.dir/wrap_geom.cc.o.d -o CMakeFiles/_ost_geom.dir/wrap_geom.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/wrap_geom.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/info/src/info_group.hh:33, from /build/openstructure-2.3.1/modules/info/src/info.hh:32, from /build/openstructure-2.3.1/modules/info/src/info_item.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/info/src/info_item.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_path.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_path.cc.o -MF CMakeFiles/ost_info.dir/info_path.cc.o.d -o CMakeFiles/ost_info.dir/info_path.cc.o -c /build/openstructure-2.3.1/modules/info/src/info_path.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_vecmat4_op.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat2.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat2.cc.o -MF CMakeFiles/_ost_geom.dir/export_mat2.cc.o.d -o CMakeFiles/_ost_geom.dir/export_mat2.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_mat2.cc [ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_set.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_set.cc.o -MF CMakeFiles/ost_info.dir/info_set.cc.o.d -o CMakeFiles/ost_info.dir/info_set.cc.o -c /build/openstructure-2.3.1/modules/info/src/info_set.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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/wrap_geom.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat3.cc.o -MF CMakeFiles/_ost_geom.dir/export_mat3.cc.o.d -o CMakeFiles/_ost_geom.dir/export_mat3.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_mat3.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/info/src/info_group.hh:33, from /build/openstructure-2.3.1/modules/info/src/info_set.hh:29, from /build/openstructure-2.3.1/modules/info/src/info_set.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/info/src/info_set.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_mat2.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_mat3.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat4.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat4.cc.o -MF CMakeFiles/_ost_geom.dir/export_mat4.cc.o.d -o CMakeFiles/_ost_geom.dir/export_mat4.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_mat4.cc [ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_visitor.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_visitor.cc.o -MF CMakeFiles/ost_info.dir/info_visitor.cc.o.d -o CMakeFiles/ost_info.dir/info_visitor.cc.o -c /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/geom_info_conversion.cc.o -MF CMakeFiles/ost_info.dir/geom_info_conversion.cc.o.d -o CMakeFiles/ost_info.dir/geom_info_conversion.cc.o -c /build/openstructure-2.3.1/modules/info/src/geom_info_conversion.cc [ 5%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2.cc.o -MF CMakeFiles/_ost_geom.dir/export_composite2.cc.o.d -o CMakeFiles/_ost_geom.dir/export_composite2.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_composite2.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/info/src/geom_info_conversion.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_handle.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 5%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o -MF CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o.d -o CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o -c /build/openstructure-2.3.1/modules/info/src/info_verbose_visitor.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_mat4.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/info/src/info_group.hh:33, from /build/openstructure-2.3.1/modules/info/src/info_verbose_visitor.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/info/src/info_verbose_visitor.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 5%] Linking CXX shared library ../../../stage/lib/libost_info.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_info.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_info.so.2.3 -o ../../../stage/lib/libost_info.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 ../../../stage/lib/libost_base.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_info.so.2.3 ../../../stage/lib/libost_info.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 5%] Built target ost_info make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 5%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_base.cc.o -MF CMakeFiles/ost_mol.dir/atom_base.cc.o.d -o CMakeFiles/ost_mol.dir/atom_base.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/atom_base.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_composite2.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl.hh:24, from /build/openstructure-2.3.1/modules/mol/base/src/atom_base.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/atom_base.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/atom_base.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 5%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_handle.cc.o -MF CMakeFiles/ost_mol.dir/atom_handle.cc.o.d -o CMakeFiles/ost_mol.dir/atom_handle.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/atom_handle.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/atom_handle.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/atom_handle.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/atom_handle.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 5%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3.cc.o -MF CMakeFiles/_ost_geom.dir/export_composite3.cc.o.d -o CMakeFiles/_ost_geom.dir/export_composite3.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_composite3.cc [ 5%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_view.cc.o -MF CMakeFiles/ost_mol.dir/atom_view.cc.o.d -o CMakeFiles/ost_mol.dir/atom_view.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/atom_view.cc [ 5%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_composite2_op.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/modules/mol/base/src/residue_view.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/atom_view.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/atom_view.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/atom_view.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_composite3.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_composite2_op.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 5%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/bond_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/bond_handle.cc.o -MF CMakeFiles/ost_mol.dir/bond_handle.cc.o.d -o CMakeFiles/ost_mol.dir/bond_handle.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/bond_handle.cc In file included from /usr/include/boost/preprocessor/iteration/detail/iter/forward1.hpp:47, from /usr/include/boost/python/detail/invoke.hpp:61, from /usr/include/boost/python/detail/caller.hpp:16, from /usr/include/boost/python/object/function_handle.hpp:8, from /usr/include/boost/python/converter/arg_to_python.hpp:19: /usr/include/boost/python/detail/invoke.hpp: In function 'PyObject* boost::python::detail::invoke(invoke_tag_, const RC&, F&, TC&) [with RC = boost::python::to_python_value; F = geom::Quat (geom::Rotation3::*)() const; TC = boost::python::arg_from_python]': /usr/include/boost/python/detail/invoke.hpp:86:25: note: parameter passing for argument of type 'geom::Quat' when C++17 is enabled changed to match C++14 in GCC 10.1 86 | return rc( (tc().*f)(BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, ac, () BOOST_PP_INTERCEPT)) ); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 5%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_composite3_op.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl.hh:24, from /build/openstructure-2.3.1/modules/mol/base/src/bond_handle.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/list:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl_fw.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/bond_handle.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/bond_handle.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 5%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_base.cc.o -MF CMakeFiles/ost_mol.dir/chain_base.cc.o.d -o CMakeFiles/ost_mol.dir/chain_base.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/chain_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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/chain_base.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/chain_base.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/chain_base.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_composite3_op.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 5%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_handle.cc.o -MF CMakeFiles/ost_mol.dir/chain_handle.cc.o.d -o CMakeFiles/ost_mol.dir/chain_handle.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/chain_handle.cc [ 5%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_quat.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_quat.cc.o -MF CMakeFiles/_ost_geom.dir/export_quat.cc.o.d -o CMakeFiles/_ost_geom.dir/export_quat.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_quat.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/chain_handle.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/chain_handle.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/mol/base/src/chain_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/chain_handle.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 5%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_view.cc.o -MF CMakeFiles/ost_mol.dir/chain_view.cc.o.d -o CMakeFiles/ost_mol.dir/chain_view.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/chain_view.cc In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/chain_view.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/algorithm:60, from /build/openstructure-2.3.1/modules/mol/base/src/chain_view.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 5%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_transform.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -D_ost_geom_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_transform.cc.o -MF CMakeFiles/_ost_geom.dir/export_transform.cc.o.d -o CMakeFiles/_ost_geom.dir/export_transform.cc.o -c /build/openstructure-2.3.1/modules/geom/pymod/export_transform.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/pymod/export_quat.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/geom/pymod/export_quat.cc: In function 'geom::Quat normalize(const geom::Quat&)': /build/openstructure-2.3.1/modules/geom/pymod/export_quat.cc:24:42: note: parameter passing for argument of type 'geom::Quat' when C++17 is enabled changed to match C++14 in GCC 10.1 24 | geom::Quat normalize (const geom::Quat& q) | ^ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_type.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_type.cc.o -MF CMakeFiles/ost_mol.dir/chain_type.cc.o.d -o CMakeFiles/ost_mol.dir/chain_type.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/chain_type.cc [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_frame.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_frame.cc.o -MF CMakeFiles/ost_mol.dir/coord_frame.cc.o.d -o CMakeFiles/ost_mol.dir/coord_frame.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/coord_frame.cc [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_group.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_group.cc.o -MF CMakeFiles/ost_mol.dir/coord_group.cc.o.d -o CMakeFiles/ost_mol.dir/coord_group.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/coord_group.cc [ 6%] Linking CXX shared module ../../../stage/lib/python3.11/dist-packages/ost/geom/_ost_geom.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_geom.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/in_mem_coord_source.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/coord_frame.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/coord_frame.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /build/openstructure-2.3.1/modules/mol/base/src/in_mem_coord_source.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/coord_group.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/coord_group.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/geom/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/geom/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 6%] Built target _ost_geom 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src/CMakeFiles/ost_img.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/circle_mask.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/circle_mask.cc.o -MF CMakeFiles/ost_img.dir/circle_mask.cc.o.d -o CMakeFiles/ost_img.dir/circle_mask.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/circle_mask.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/circle_mask.hh:25, from /build/openstructure-2.3.1/modules/img/base/src/circle_mask.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/composite_mask.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/composite_mask.cc.o -MF CMakeFiles/ost_img.dir/composite_mask.cc.o.d -o CMakeFiles/ost_img.dir/composite_mask.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/composite_mask.cc [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/editor_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/editor_base.cc.o -MF CMakeFiles/ost_mol.dir/editor_base.cc.o.d -o CMakeFiles/ost_mol.dir/editor_base.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/editor_base.cc [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_base.cc.o -MF CMakeFiles/ost_mol.dir/entity_base.cc.o.d -o CMakeFiles/ost_mol.dir/entity_base.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/entity_base.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/mask_base.hh:27, from /build/openstructure-2.3.1/modules/img/base/src/composite_mask.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/composite_mask.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/editor_base.hh:27, from /build/openstructure-2.3.1/modules/mol/base/src/editor_base.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/editor_base.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data_algorithm.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/data_algorithm.cc.o -MF CMakeFiles/ost_img.dir/data_algorithm.cc.o.d -o CMakeFiles/ost_img.dir/data_algorithm.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/data_algorithm.cc In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/editor_base.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/entity_base.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/entity_base.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/entity_base.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data_observer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/data_observer.cc.o -MF CMakeFiles/ost_img.dir/data_observer.cc.o.d -o CMakeFiles/ost_img.dir/data_observer.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/data_observer.cc [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_handle.cc.o -MF CMakeFiles/ost_mol.dir/entity_handle.cc.o.d -o CMakeFiles/ost_mol.dir/entity_handle.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/entity_handle.cc [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_observer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_observer.cc.o -MF CMakeFiles/ost_mol.dir/entity_observer.cc.o.d -o CMakeFiles/ost_mol.dir/entity_observer.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/entity_observer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/data.hh:36, from /build/openstructure-2.3.1/modules/img/base/src/image_handle.hh:38, from /build/openstructure-2.3.1/modules/img/base/src/data_observer.hh:31, from /build/openstructure-2.3.1/modules/img/base/src/data_observer.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/base/src/data_observer.cc:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o -MF CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o.d -o CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/entity_property_mapper.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/entity_handle.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/entity_handle.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/data.cc.o -MF CMakeFiles/ost_img.dir/data.cc.o.d -o CMakeFiles/ost_img.dir/data.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/data.cc In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/data.hh:36, from /build/openstructure-2.3.1/modules/img/base/src/data.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/base/src/data.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/entity_property_mapper.hh:29, from /build/openstructure-2.3.1/modules/mol/base/src/entity_property_mapper.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/mol/base/src/entity_property_mapper.hh:28: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent_iterator.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/extent_iterator.cc.o -MF CMakeFiles/ost_img.dir/extent_iterator.cc.o.d -o CMakeFiles/ost_img.dir/extent_iterator.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/extent_iterator.cc [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_view.cc.o -MF CMakeFiles/ost_mol.dir/entity_view.cc.o.d -o CMakeFiles/ost_mol.dir/entity_view.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/entity_view.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/extent_iterator.hh:30, from /build/openstructure-2.3.1/modules/img/base/src/extent_iterator.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_visitor.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_visitor.cc.o -MF CMakeFiles/ost_mol.dir/entity_visitor.cc.o.d -o CMakeFiles/ost_mol.dir/entity_visitor.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/entity_visitor.cc [ 7%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent_mask.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/extent_mask.cc.o -MF CMakeFiles/ost_img.dir/extent_mask.cc.o.d -o CMakeFiles/ost_img.dir/extent_mask.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/extent_mask.cc [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/ics_editor.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/ics_editor.cc.o -MF CMakeFiles/ost_mol.dir/ics_editor.cc.o.d -o CMakeFiles/ost_mol.dir/ics_editor.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/ics_editor.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/modules/mol/base/src/entity_view.hh:32, from /build/openstructure-2.3.1/modules/mol/base/src/entity_view.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/algorithm:60, from /build/openstructure-2.3.1/modules/mol/base/src/entity_view.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/entity_view.cc:40: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/extent.hh:34, from /build/openstructure-2.3.1/modules/img/base/src/extent_mask.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/extent_mask.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/base/src/extent.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/extent.cc.o -MF CMakeFiles/ost_img.dir/extent.cc.o.d -o CMakeFiles/ost_img.dir/extent.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/extent.cc /build/openstructure-2.3.1/modules/mol/base/src/entity_view.cc: In member function 'std::pair ost::mol::EntityView::GetMinMax(const String&, ost::mol::Prop::Level) const': /build/openstructure-2.3.1/modules/mol/base/src/entity_view.cc:663:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 663 | Prop::Level hint) const | ^~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/ics_editor.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/ics_editor.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/ics_editor.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/ics_editor.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/extent.hh:34, from /build/openstructure-2.3.1/modules/img/base/src/extent.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/base/src/extent.cc:28: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_factory.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_factory.cc.o -MF CMakeFiles/ost_img.dir/image_factory.cc.o.d -o CMakeFiles/ost_img.dir/image_factory.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/image_factory.cc [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/not_connected_error.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/not_connected_error.cc.o -MF CMakeFiles/ost_mol.dir/not_connected_error.cc.o.d -o CMakeFiles/ost_mol.dir/not_connected_error.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/not_connected_error.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/extent.hh:34, from /build/openstructure-2.3.1/modules/img/base/src/image_factory.hh:32, from /build/openstructure-2.3.1/modules/img/base/src/image_factory.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/base/src/image_factory.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/property_id.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/property_id.cc.o -MF CMakeFiles/ost_mol.dir/property_id.cc.o.d -o CMakeFiles/ost_mol.dir/property_id.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/property_id.cc [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_handle.cc.o -MF CMakeFiles/ost_img.dir/image_handle.cc.o.d -o CMakeFiles/ost_img.dir/image_handle.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/image_handle.cc [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/query.cc.o -MF CMakeFiles/ost_mol.dir/query.cc.o.d -o CMakeFiles/ost_mol.dir/query.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/query.cc [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_error.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/query_error.cc.o -MF CMakeFiles/ost_mol.dir/query_error.cc.o.d -o CMakeFiles/ost_mol.dir/query_error.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/query_error.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/data.hh:36, from /build/openstructure-2.3.1/modules/img/base/src/image_handle.hh:38, from /build/openstructure-2.3.1/modules/img/base/src/image_handle.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/base/src/image_handle.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_state.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/query_state.cc.o -MF CMakeFiles/ost_mol.dir/query_state.cc.o.d -o CMakeFiles/ost_mol.dir/query_state.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/query_state.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/query.hh:39, from /build/openstructure-2.3.1/modules/mol/base/src/query.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/mol/base/src/query.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_impl.cc.o -MF CMakeFiles/ost_img.dir/image_impl.cc.o.d -o CMakeFiles/ost_img.dir/image_impl.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/image_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/query_state.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/query_state.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_factory.hh:31, from /build/openstructure-2.3.1/modules/img/base/src/image_state_fw.hh:30, from /build/openstructure-2.3.1/modules/img/base/src/image_impl.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/image_impl.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/modules/img/base/src/image_impl.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_list.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_list.cc.o -MF CMakeFiles/ost_img.dir/image_list.cc.o.d -o CMakeFiles/ost_img.dir/image_list.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/image_list.cc [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_base.cc.o -MF CMakeFiles/ost_mol.dir/residue_base.cc.o.d -o CMakeFiles/ost_mol.dir/residue_base.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/residue_base.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/base/src/image_list.hh:29, from /build/openstructure-2.3.1/modules/img/base/src/image_list.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/img/base/src/image_list.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/residue_base.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/residue_base.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_handle.cc.o -MF CMakeFiles/ost_mol.dir/residue_handle.cc.o.d -o CMakeFiles/ost_mol.dir/residue_handle.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/residue_handle.cc [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/inverted_mask.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/inverted_mask.cc.o -MF CMakeFiles/ost_img.dir/inverted_mask.cc.o.d -o CMakeFiles/ost_img.dir/inverted_mask.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/inverted_mask.cc [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_view.cc.o -MF CMakeFiles/ost_mol.dir/residue_view.cc.o.d -o CMakeFiles/ost_mol.dir/residue_view.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/residue_view.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/mask_base.hh:27, from /build/openstructure-2.3.1/modules/img/base/src/inverted_mask.hh:23, from /build/openstructure-2.3.1/modules/img/base/src/inverted_mask.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/residue_handle.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/map.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/map.cc.o -MF CMakeFiles/ost_img.dir/map.cc.o.d -o CMakeFiles/ost_img.dir/map.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/map.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/residue_handle.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/modules/mol/base/src/residue_view.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/algorithm:60, from /build/openstructure-2.3.1/modules/mol/base/src/residue_view.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_builder.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_builder.cc.o -MF CMakeFiles/ost_mol.dir/surface_builder.cc.o.d -o CMakeFiles/ost_mol.dir/surface_builder.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/surface_builder.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/base/src/map.hh:22, from /build/openstructure-2.3.1/modules/img/base/src/map.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:32: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/mask_base.cc.o -MF CMakeFiles/ost_img.dir/mask_base.cc.o.d -o CMakeFiles/ost_img.dir/mask_base.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/mask_base.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/surface_handle.hh:24, from /build/openstructure-2.3.1/modules/mol/base/src/surface_builder.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/surface_builder.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/surface_builder.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/mask_base.hh:27, from /build/openstructure-2.3.1/modules/img/base/src/mask_base.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_handle.cc.o -MF CMakeFiles/ost_mol.dir/surface_handle.cc.o.d -o CMakeFiles/ost_mol.dir/surface_handle.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/surface_handle.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o -MF CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o.d -o CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/transfer_connectivity.cc [ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/mask_op.cc.o -MF CMakeFiles/ost_img.dir/mask_op.cc.o.d -o CMakeFiles/ost_img.dir/mask_op.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/mask_op.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /build/openstructure-2.3.1/modules/mol/base/src/surface_handle.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/mask_base.hh:27, from /build/openstructure-2.3.1/modules/img/base/src/composite_mask.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/mask_op.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/scoped_ptr.hpp:22, from /usr/include/boost/scoped_ptr.hpp:13, from /usr/include/boost/smart_ptr.hpp:17, from /build/openstructure-2.3.1/modules/img/base/src/mask_base_fw.hh:23, from /build/openstructure-2.3.1/modules/img/base/src/mask_op.hh:24, from /build/openstructure-2.3.1/modules/img/base/src/mask_op.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/query.hh:39, from /build/openstructure-2.3.1/modules/mol/base/src/entity_handle.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/transfer_connectivity.hh:24, from /build/openstructure-2.3.1/modules/mol/base/src/transfer_connectivity.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/module_config.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/transfer_connectivity.hh:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/mask.cc.o -MF CMakeFiles/ost_img.dir/mask.cc.o.d -o CMakeFiles/ost_img.dir/mask.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/mask.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/torsion_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/torsion_handle.cc.o -MF CMakeFiles/ost_mol.dir/torsion_handle.cc.o.d -o CMakeFiles/ost_mol.dir/torsion_handle.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/torsion_handle.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/polygon_mask.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/mask.hh:29, from /build/openstructure-2.3.1/modules/img/base/src/mask.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/base/src/mask.hh:28: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o -MF CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o.d -o CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/query_view_wrapper.cc [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/observable.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/observable.cc.o -MF CMakeFiles/ost_img.dir/observable.cc.o.d -o CMakeFiles/ost_img.dir/observable.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/observable.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl.hh:24, from /build/openstructure-2.3.1/modules/mol/base/src/torsion_handle.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl_fw.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/torsion_handle.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/torsion_handle.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/modules/mol/base/src/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/modules/mol/base/src/query_view_wrapper.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/query_view_wrapper.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/observable.hh:31, from /build/openstructure-2.3.1/modules/img/base/src/observable.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/list:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/observable.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/view_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/view_op.cc.o -MF CMakeFiles/ost_mol.dir/view_op.cc.o.d -o CMakeFiles/ost_mol.dir/view_op.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/view_op.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_source.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_source.cc.o -MF CMakeFiles/ost_mol.dir/coord_source.cc.o.d -o CMakeFiles/ost_mol.dir/coord_source.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/coord_source.cc [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/paste_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/paste_impl.cc.o -MF CMakeFiles/ost_img.dir/paste_impl.cc.o.d -o CMakeFiles/ost_img.dir/paste_impl.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/paste_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_algorithm.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/paste_impl.hh:24, from /build/openstructure-2.3.1/modules/img/base/src/paste_impl.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:32: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/view_op.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/mol/base/src/view_op.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/view_op.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/xcs_editor.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/coord_source.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/coord_source.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o -MF CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o.d -o CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/in_mem_coord_source.cc [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/peak.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/peak.cc.o -MF CMakeFiles/ost_img.dir/peak.cc.o.d -o CMakeFiles/ost_img.dir/peak.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/peak.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /build/openstructure-2.3.1/modules/mol/base/src/in_mem_coord_source.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/in_mem_coord_source.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/peak.hh:31, from /build/openstructure-2.3.1/modules/img/base/src/peak.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/fstream:38, from /build/openstructure-2.3.1/modules/img/base/src/peak.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/phase.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/phase.cc.o -MF CMakeFiles/ost_img.dir/phase.cc.o.d -o CMakeFiles/ost_img.dir/phase.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/phase.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/bounding_box.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/bounding_box.cc.o -MF CMakeFiles/ost_mol.dir/bounding_box.cc.o.d -o CMakeFiles/ost_mol.dir/bounding_box.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/bounding_box.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/xcs_editor.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/xcs_editor.cc.o -MF CMakeFiles/ost_mol.dir/xcs_editor.cc.o.d -o CMakeFiles/ost_mol.dir/xcs_editor.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/xcs_editor.cc /build/openstructure-2.3.1/modules/img/base/src/phase.cc: In member function 'const ost::img::Phase ost::img::Phase::operator+=(const ost::img::Phase&)': /build/openstructure-2.3.1/modules/img/base/src/phase.cc:49:47: note: parameter passing for argument of type 'ost::img::Phase' when C++17 is enabled changed to match C++14 in GCC 10.1 49 | const Phase Phase::operator+=(const Phase& rhs) | ^ [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/physical_units.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/physical_units.cc.o -MF CMakeFiles/ost_img.dir/physical_units.cc.o.d -o CMakeFiles/ost_img.dir/physical_units.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/physical_units.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/xcs_editor.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/xcs_editor.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/xcs_editor.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/pixel_sampling.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/pixel_sampling.cc.o -MF CMakeFiles/ost_img.dir/pixel_sampling.cc.o.d -o CMakeFiles/ost_img.dir/pixel_sampling.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/pixel_sampling.cc In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/xcs_editor.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/bounding_box.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/eigen3/Eigen/src/Core/util/Macros.h:679, from /usr/include/eigen3/Eigen/Core:19, from /usr/include/eigen3/Eigen/Eigenvalues:11, from /build/openstructure-2.3.1/modules/mol/base/src/bounding_box.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/pixel_sampling.hh:32, from /build/openstructure-2.3.1/modules/img/base/src/pixel_sampling.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /build/openstructure-2.3.1/modules/img/base/src/pixel_sampling.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/point_list.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/point_list.cc.o -MF CMakeFiles/ost_img.dir/point_list.cc.o.d -o CMakeFiles/ost_img.dir/point_list.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/point_list.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/chain_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log_sink.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:25, from /build/openstructure-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/point_list.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/point_list.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/point.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/point.cc.o -MF CMakeFiles/ost_img.dir/point.cc.o.d -o CMakeFiles/ost_img.dir/point.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/point.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/impl/chain_impl.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/impl/chain_impl.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/impl/chain_impl.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log_sink.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh: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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/point.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/base/src/point.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/polygon_mask.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/polygon_mask.cc.o -MF CMakeFiles/ost_img.dir/polygon_mask.cc.o.d -o CMakeFiles/ost_img.dir/polygon_mask.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/polygon_mask.cc [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/connector_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/polygon_mask.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/polygon_mask.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/algorithm:60, from /build/openstructure-2.3.1/modules/img/base/src/polygon_mask.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/impl/connector_impl.hh:24, from /build/openstructure-2.3.1/modules/mol/base/src/impl/connector_impl.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/mol/base/src/impl/connector_impl.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/dihedral.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/dihedral.cc.o -MF CMakeFiles/ost_mol.dir/impl/dihedral.cc.o.d -o CMakeFiles/ost_mol.dir/impl/dihedral.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/dihedral.cc In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/impl/connector_impl.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 13%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/progress.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/progress.cc.o -MF CMakeFiles/ost_img.dir/progress.cc.o.d -o CMakeFiles/ost_img.dir/progress.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/progress.cc [ 13%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.cc [ 13%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/size.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/size.cc.o -MF CMakeFiles/ost_img.dir/size.cc.o.d -o CMakeFiles/ost_img.dir/size.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/size.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/impl/dihedral.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/weak_ptr.hpp:16, 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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/impl/dihedral.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/src/size.cc:32: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/base/src/size.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.cc:35: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 13%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/fragment_impl.cc [ 13%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/spherical_mask.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/spherical_mask.cc.o -MF CMakeFiles/ost_img.dir/spherical_mask.cc.o.d -o CMakeFiles/ost_img.dir/spherical_mask.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/spherical_mask.cc In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.cc:40: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/spherical_mask.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/spherical_mask.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/base/src/impl/fragment_impl.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/impl/fragment_impl.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 13%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_info_convert.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/mask_info_convert.cc.o -MF CMakeFiles/ost_img.dir/mask_info_convert.cc.o.d -o CMakeFiles/ost_img.dir/mask_info_convert.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/mask_info_convert.cc [ 13%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_ast.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_ast.cc.o -MF CMakeFiles/ost_mol.dir/impl/query_ast.cc.o.d -o CMakeFiles/ost_mol.dir/impl/query_ast.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/query_ast.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/img/base/src/mask_info_convert.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/deque:60, from /usr/include/c++/12/stack:60, from /build/openstructure-2.3.1/modules/img/base/src/mask_info_convert.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 13%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o -MF CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o.d -o CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_factory.cc [ 13%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/query_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/query_impl.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/query_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_factory.hh:31, from /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_factory.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data_types.hh:30, from /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_factory.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 13%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/residue_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/impl/residue_impl.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/impl/residue_impl.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/impl/residue_impl.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/impl/query_impl.hh:36, from /build/openstructure-2.3.1/modules/mol/base/src/impl/query_impl.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/mol/base/src/impl/query_impl.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log_sink.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh: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( | ^~~~~~~~~~~~~~~~~~~~ [ 13%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/index.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_state/index.cc.o -MF CMakeFiles/ost_img.dir/image_state/index.cc.o.d -o CMakeFiles/ost_img.dir/image_state/index.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/image_state/index.cc [ 13%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o -MF CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o.d -o CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_base.cc [ 13%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/surface_impl.cc [ 13%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/torsion_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_base.hh:34, from /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_base.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_base_fw.hh:28, from /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_base.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/modules/mol/base/src/impl/surface_impl.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl.hh:25, from /build/openstructure-2.3.1/modules/mol/base/src/impl/torsion_impl.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/mol/base/src/impl/torsion_impl.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 13%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o -MF CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o.d -o CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o -c /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_prop.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/src/impl/torsion_impl.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 13%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o -MF CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o.d -o CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o -c /build/openstructure-2.3.1/modules/img/base/src/raster_image/raster_image.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/base/src/raster_image/raster_image.hh:31, from /build/openstructure-2.3.1/modules/img/base/src/raster_image/raster_image.cc:38: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/base/src/raster_image/raster_image.cc:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 13%] Linking CXX shared library ../../../../stage/lib/libost_img.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_img.so.2.3 -o ../../../../stage/lib/libost_img.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_img.so.2.3.1 ../../../../stage/lib/libost_img.so.2.3 ../../../../stage/lib/libost_img.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 13%] Built target ost_img make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/depend 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src/CMakeFiles/ost_img_alg.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 13%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/wrap_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/pymod/CMakeFiles/_ost_base.dir/wrap_base.cc.o -MF CMakeFiles/_ost_base.dir/wrap_base.cc.o.d -o CMakeFiles/_ost_base.dir/wrap_base.cc.o -c /build/openstructure-2.3.1/modules/base/pymod/wrap_base.cc [ 13%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/anisotropic.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/anisotropic.cc.o -MF CMakeFiles/ost_img_alg.dir/anisotropic.cc.o.d -o CMakeFiles/ost_img_alg.dir/anisotropic.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/anisotropic.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian.hh:36, from /build/openstructure-2.3.1/modules/img/alg/src/anisotropic.hh:28, from /build/openstructure-2.3.1/modules/img/alg/src/anisotropic.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/alg/src/anisotropic.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 13%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o -MF CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o.d -o CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/auto_correlate.cc [ 15%] Linking CXX shared library ../../../../stage/lib/libost_mol.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_mol.so.2.3 -o ../../../../stage/lib/libost_mol.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_mol.so.2.3 ../../../../stage/lib/libost_mol.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 15%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src/CMakeFiles/ost_seq.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 15%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o -MF CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o.d -o CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o -c /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/fft.hh:27, from /build/openstructure-2.3.1/modules/img/alg/src/auto_correlate.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/alg/src/auto_correlate.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_impl.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /usr/include/boost/format.hpp:17, from /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_impl.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/convolute.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/convolute.cc.o -MF CMakeFiles/ost_img_alg.dir/convolute.cc.o.d -o CMakeFiles/ost_img_alg.dir/convolute.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/convolute.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/convolute.hh:24, from /build/openstructure-2.3.1/modules/img/alg/src/convolute.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 16%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o -MF CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o.d -o CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o -c /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_list_impl.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_list_impl.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_handle.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 16%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/correlate.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/correlate.cc.o -MF CMakeFiles/ost_img_alg.dir/correlate.cc.o.d -o CMakeFiles/ost_img_alg.dir/correlate.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/correlate.cc [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_handle.cc.o -MF CMakeFiles/ost_seq.dir/sequence_handle.cc.o.d -o CMakeFiles/ost_seq.dir/sequence_handle.cc.o -c /build/openstructure-2.3.1/modules/seq/base/src/sequence_handle.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/correlate.hh:24, from /build/openstructure-2.3.1/modules/img/alg/src/correlate.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/modules/seq/base/src/sequence_handle.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /build/openstructure-2.3.1/modules/seq/base/src/sequence_handle.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_region.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_region.cc.o -MF CMakeFiles/ost_seq.dir/aligned_region.cc.o.d -o CMakeFiles/ost_seq.dir/aligned_region.cc.o -c /build/openstructure-2.3.1/modules/seq/base/src/aligned_region.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o -MF CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o.d -o CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/cross_correlate.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:26, from /build/openstructure-2.3.1/modules/seq/base/src/aligned_region.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/integrity_error.hh:22, from /build/openstructure-2.3.1/modules/seq/base/src/aligned_region.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/density_slice.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/density_slice.cc.o -MF CMakeFiles/ost_img_alg.dir/density_slice.cc.o.d -o CMakeFiles/ost_img_alg.dir/density_slice.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/density_slice.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /build/openstructure-2.3.1/modules/seq/base/src/aligned_column.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_list.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_list.cc.o -MF CMakeFiles/ost_seq.dir/sequence_list.cc.o.d -o CMakeFiles/ost_seq.dir/sequence_list.cc.o -c /build/openstructure-2.3.1/modules/seq/base/src/sequence_list.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/density_slice.hh:28, from /build/openstructure-2.3.1/modules/img/alg/src/density_slice.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/dft.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/dft.cc.o -MF CMakeFiles/ost_img_alg.dir/dft.cc.o.d -o CMakeFiles/ost_img_alg.dir/dft.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/dft.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/seq/base/src/sequence_list.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /build/openstructure-2.3.1/modules/seq/base/src/sequence_list.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/seq/base/src/sequence_list.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/dft.hh:24, from /build/openstructure-2.3.1/modules/img/alg/src/dft.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/alignment_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/alignment_handle.cc.o -MF CMakeFiles/ost_seq.dir/alignment_handle.cc.o.d -o CMakeFiles/ost_seq.dir/alignment_handle.cc.o -c /build/openstructure-2.3.1/modules/seq/base/src/alignment_handle.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fft.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fft.cc.o -MF CMakeFiles/ost_img_alg.dir/fft.cc.o.d -o CMakeFiles/ost_img_alg.dir/fft.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/fft.cc [ 17%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_logger.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/pymod/CMakeFiles/_ost_base.dir/export_logger.cc.o -MF CMakeFiles/_ost_base.dir/export_logger.cc.o.d -o CMakeFiles/_ost_base.dir/export_logger.cc.o -c /build/openstructure-2.3.1/modules/base/pymod/export_logger.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/modules/seq/base/src/alignment_handle.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /build/openstructure-2.3.1/modules/seq/base/src/alignment_handle.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/modules/seq/base/src/alignment_handle.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /build/openstructure-2.3.1/modules/seq/base/src/alignment_handle.cc:32: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/img/alg/src/fft.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o -MF CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o.d -o CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/fourier_filters.cc [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_op.cc.o -MF CMakeFiles/ost_seq.dir/sequence_op.cc.o.d -o CMakeFiles/ost_seq.dir/sequence_op.cc.o -c /build/openstructure-2.3.1/modules/seq/base/src/sequence_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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/fft.hh:27, from /build/openstructure-2.3.1/modules/img/alg/src/fourier_filters.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/alg/src/fourier_filters.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/seq/base/src/sequence_op.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/seq/base/src/sequence_op.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/views_from_sequences.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/views_from_sequences.cc.o -MF CMakeFiles/ost_seq.dir/views_from_sequences.cc.o.d -o CMakeFiles/ost_seq.dir/views_from_sequences.cc.o -c /build/openstructure-2.3.1/modules/seq/base/src/views_from_sequences.cc [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian.cc.o -MF CMakeFiles/ost_img_alg.dir/gaussian.cc.o.d -o CMakeFiles/ost_img_alg.dir/gaussian.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/gaussian.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/views_from_sequences.hh:23, from /build/openstructure-2.3.1/modules/seq/base/src/views_from_sequences.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/integrity_error.hh:22, from /build/openstructure-2.3.1/modules/seq/base/src/views_from_sequences.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/profile_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/profile_handle.cc.o -MF CMakeFiles/ost_seq.dir/profile_handle.cc.o.d -o CMakeFiles/ost_seq.dir/profile_handle.cc.o -c /build/openstructure-2.3.1/modules/seq/base/src/profile_handle.cc [ 17%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_range.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/pymod/CMakeFiles/_ost_base.dir/export_range.cc.o -MF CMakeFiles/_ost_base.dir/export_range.cc.o.d -o CMakeFiles/_ost_base.dir/export_range.cc.o -c /build/openstructure-2.3.1/modules/base/pymod/export_range.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian.hh:36, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o -MF CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o.d -o CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/gaussian_gradient_magnitude.cc [ 17%] Linking CXX shared library ../../../../stage/lib/libost_seq.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_seq.so.2.3 -o ../../../../stage/lib/libost_seq.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_seq.so.2.3.1 ../../../../stage/lib/libost_seq.so.2.3 ../../../../stage/lib/libost_seq.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 17%] Built target ost_seq make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src/CMakeFiles/ost_bindings.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 17%] Building CXX object modules/bindings/src/CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/c++ -DOST_MODULE_OST_BINDINGS -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_bindings_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/bindings/src/CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o -MF CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o.d -o CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o -c /build/openstructure-2.3.1/modules/bindings/src/wrap_tmalign.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian_gradient_magnitude.hh:28, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian_gradient_magnitude.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian_gradient_magnitude.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 17%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_units.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/c++ -D_ost_base_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/pymod/CMakeFiles/_ost_base.dir/export_units.cc.o -MF CMakeFiles/_ost_base.dir/export_units.cc.o.d -o CMakeFiles/_ost_base.dir/export_units.cc.o -c /build/openstructure-2.3.1/modules/base/pymod/export_units.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/bindings/wrap_tmalign.hh:24, from /build/openstructure-2.3.1/modules/bindings/src/wrap_tmalign.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /build/openstructure-2.3.1/modules/bindings/src/tmalign/param_set.h:6, from /build/openstructure-2.3.1/modules/bindings/src/tmalign/TMalign.h:4, from /build/openstructure-2.3.1/modules/bindings/src/wrap_tmalign.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o -MF CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o.d -o CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/gaussian_laplacian.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian_laplacian.hh:28, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian_laplacian.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/alg/src/gaussian_laplacian.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 18%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o -MF CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o.d -o CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/highest_peak_search_3d.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 18%] Linking CXX shared module ../../../stage/lib/python3.11/dist-packages/ost/_ost_base.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_base.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_base.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/base/pymod/settings.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./settings.pyc\",\"settings.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/base/pymod/stutil.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./stutil.pyc\",\"stutil.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/base/pymod/table.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./table.pyc\",\"table.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/base/pymod/table_selector.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./table_selector.pyc\",\"table_selector.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/base/pymod/xmlrunner.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./xmlrunner.pyc\",\"xmlrunner.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/base/pymod/testutils.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/./testutils.pyc\",\"testutils.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 18%] Built target _ost_base 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/db/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src/CMakeFiles/ost_db.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 18%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/sqlite_wrap.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/c++ -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/src/CMakeFiles/ost_db.dir/sqlite_wrap.cc.o -MF CMakeFiles/ost_db.dir/sqlite_wrap.cc.o.d -o CMakeFiles/ost_db.dir/sqlite_wrap.cc.o -c /build/openstructure-2.3.1/modules/db/src/sqlite_wrap.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/stat.hh:30, from /build/openstructure-2.3.1/modules/img/alg/src/highest_peak_search_3d.cc:4: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/src/highest_peak_search_3d.cc:1: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 18%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/linear_indexer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/c++ -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/src/CMakeFiles/ost_db.dir/linear_indexer.cc.o -MF CMakeFiles/ost_db.dir/linear_indexer.cc.o.d -o CMakeFiles/ost_db.dir/linear_indexer.cc.o -c /build/openstructure-2.3.1/modules/db/src/linear_indexer.cc [ 18%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/histogram.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/histogram.cc.o -MF CMakeFiles/ost_img_alg.dir/histogram.cc.o.d -o CMakeFiles/ost_img_alg.dir/histogram.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/histogram.cc In file included from /usr/include/c++/12/vector:70, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/linear_indexer.hh:26, from /build/openstructure-2.3.1/modules/db/src/linear_indexer.cc:21: /usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {ost::db::AssemblyInfo}; _Tp = ost::db::AssemblyInfo; _Alloc = std::allocator]': /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/stat.hh:30, from /build/openstructure-2.3.1/modules/img/alg/src/histogram.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/alg/src/histogram.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {ost::db::AssemblyInfo}; _Tp = ost::db::AssemblyInfo; _Alloc = std::allocator]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = ost::db::AssemblyInfo; _Alloc = std::allocator]' at /usr/include/c++/12/bits/stl_vector.h:1294:21, inlined from 'void ost::db::LinearIndexer::AddAssembly(const String&, const std::vector >&, const std::vector&)' at /build/openstructure-2.3.1/modules/db/src/linear_indexer.cc:140:24: /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 20%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/binary_container.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/c++ -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/src/CMakeFiles/ost_db.dir/binary_container.cc.o -MF CMakeFiles/ost_db.dir/binary_container.cc.o.d -o CMakeFiles/ost_db.dir/binary_container.cc.o -c /build/openstructure-2.3.1/modules/db/src/binary_container.cc [ 20%] Linking CXX shared library ../../../stage/lib/libost_bindings.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_bindings.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_bindings.so.2.3 -o ../../../stage/lib/libost_bindings.so.2.3.1 CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_bindings.so.2.3.1 ../../../stage/lib/libost_bindings.so.2.3 ../../../stage/lib/libost_bindings.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 20%] Built target ost_bindings make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 20%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o -MF CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o.d -o CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/clip_alignment.cc [ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_iterator.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_iterator.cc.o -MF CMakeFiles/ost_img_alg.dir/line_iterator.cc.o.d -o CMakeFiles/ost_img_alg.dir/line_iterator.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/line_iterator.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/img/alg/src/line_iterator.hh:29, from /build/openstructure-2.3.1/modules/img/alg/src/line_iterator.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/clip_alignment.hh:27, from /build/openstructure-2.3.1/modules/seq/alg/src/clip_alignment.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/seq/alg/src/clip_alignment.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o -MF CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o.d -o CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/local_sigma_threshold.cc In file included from /usr/include/c++/12/vector:70, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/binary_container.hh:24, from /build/openstructure-2.3.1/modules/db/src/binary_container.cc:21: /usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/12/vector:64: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void ost::PagedArray::push_back(const T&) [with T = long long unsigned int; long long unsigned int P = 1048576]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/paged_array.hh:67:28, inlined from 'void ost::db::LinearPositionContainer::AddPositions(const geom::Vec3List&)' at /build/openstructure-2.3.1/modules/db/src/binary_container.cc:173:20: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/conservation.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/conservation.cc.o -MF CMakeFiles/ost_seq_alg.dir/conservation.cc.o.d -o CMakeFiles/ost_seq_alg.dir/conservation.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/conservation.cc [ 21%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/extract_data_helper.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/c++ -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/src/CMakeFiles/ost_db.dir/extract_data_helper.cc.o -MF CMakeFiles/ost_db.dir/extract_data_helper.cc.o.d -o CMakeFiles/ost_db.dir/extract_data_helper.cc.o -c /build/openstructure-2.3.1/modules/db/src/extract_data_helper.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/local_sigma_threshold.hh:23, from /build/openstructure-2.3.1/modules/img/alg/src/local_sigma_threshold.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/src/local_sigma_threshold.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:24, from /build/openstructure-2.3.1/modules/db/src/extract_data_helper.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /build/openstructure-2.3.1/modules/seq/alg/src/conservation.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Linking CXX shared library ../../../stage/lib/libost_db.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_db.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_db.so.2.3 -o ../../../stage/lib/libost_db.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/mask_image.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/mask_image.cc.o -MF CMakeFiles/ost_img_alg.dir/mask_image.cc.o.d -o CMakeFiles/ost_img_alg.dir/mask_image.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/mask_image.cc In file included from /usr/include/c++/12/string:53, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /usr/include/c++/12/complex:45, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:26: In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:866:17, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)' at /build/openstructure-2.3.1/modules/seq/alg/src/conservation.cc:128:27: /usr/include/c++/12/bits/basic_string.h:1064:16: warning: '*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length' may be used uninitialized [-Wmaybe-uninitialized] 1064 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:27: /usr/include/boost/variant/variant.hpp: In function 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/c++/12/ios:40: In static member function 'static constexpr void std::char_traits::assign(char_type&, const char_type&)', inlined from 'static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:421:23, inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:867:18, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)' at /build/openstructure-2.3.1/modules/seq/alg/src/conservation.cc:128:27: /usr/include/c++/12/bits/char_traits.h:354:16: warning: '((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]' may be used uninitialized [-Wmaybe-uninitialized] 354 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)' at /build/openstructure-2.3.1/modules/seq/alg/src/conservation.cc:128:27: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)' at /build/openstructure-2.3.1/modules/seq/alg/src/conservation.cc:128:27: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)' at /build/openstructure-2.3.1/modules/seq/alg/src/conservation.cc:128:27: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)' at /build/openstructure-2.3.1/modules/seq/alg/src/conservation.cc:128:27: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_db.so.2.3.1 ../../../stage/lib/libost_db.so.2.3 ../../../stage/lib/libost_db.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 21%] Built target ost_db 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/info/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod/CMakeFiles/_ost_info.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 21%] Building CXX object modules/info/pymod/CMakeFiles/_ost_info.dir/wrap_info.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_info_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/pymod/CMakeFiles/_ost_info.dir/wrap_info.cc.o -MF CMakeFiles/_ost_info.dir/wrap_info.cc.o.d -o CMakeFiles/_ost_info.dir/wrap_info.cc.o -c /build/openstructure-2.3.1/modules/info/pymod/wrap_info.cc [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o -MF CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o.d -o CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/contact_prediction_score.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/mask_image.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /build/openstructure-2.3.1/modules/seq/alg/src/contact_prediction_score.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer.cc.o -MF CMakeFiles/ost_img_alg.dir/normalizer.cc.o.d -o CMakeFiles/ost_img_alg.dir/normalizer.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/normalizer.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/info/pymod/wrap_info.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o -MF CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o.d -o CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/contact_weight_matrix.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/normalizer.hh:28, from /build/openstructure-2.3.1/modules/img/alg/src/normalizer.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o -MF CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o.d -o CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/normalizer_factory.cc [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/distance_map.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/distance_map.cc.o -MF CMakeFiles/ost_seq_alg.dir/distance_map.cc.o.d -o CMakeFiles/ost_seq_alg.dir/distance_map.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/distance_map.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/stat_min_max.hh:30, from /build/openstructure-2.3.1/modules/img/alg/src/normalizer_factory.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/distance_map.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/distance_map.hh:33, from /build/openstructure-2.3.1/modules/seq/alg/src/distance_map.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_linear.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_linear.cc.o -MF CMakeFiles/ost_img_alg.dir/norm_linear.cc.o.d -o CMakeFiles/ost_img_alg.dir/norm_linear.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/norm_linear.cc [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/entropy.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/entropy.cc.o -MF CMakeFiles/ost_seq_alg.dir/entropy.cc.o.d -o CMakeFiles/ost_seq_alg.dir/entropy.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/entropy.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/norm_linear.hh:28, from /build/openstructure-2.3.1/modules/img/alg/src/norm_linear.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/modules/seq/alg/src/entropy.hh:24, from /build/openstructure-2.3.1/modules/seq/alg/src/entropy.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/seq/alg/src/entropy.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/seq/alg/src/entropy.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/modules/seq/alg/src/impl/align_impl.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/global_align.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/global_align.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_od.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_od.cc.o -MF CMakeFiles/ost_img_alg.dir/norm_od.cc.o.d -o CMakeFiles/ost_img_alg.dir/norm_od.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/norm_od.cc [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/ins_del.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/ins_del.cc.o -MF CMakeFiles/ost_seq_alg.dir/ins_del.cc.o.d -o CMakeFiles/ost_seq_alg.dir/ins_del.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/ins_del.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/norm_od.hh:28, from /build/openstructure-2.3.1/modules/img/alg/src/norm_od.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/ins_del.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/alg/src/power_spectrum.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/modules/seq/alg/src/impl/align_impl.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/local_align.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/local_align.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 22%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/randomize.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/randomize.cc.o -MF CMakeFiles/ost_img_alg.dir/randomize.cc.o.d -o CMakeFiles/ost_img_alg.dir/randomize.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/randomize.cc [ 22%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o -MF CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o.d -o CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/merge_pairwise_alignments.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/modules/seq/alg/src/merge_pairwise_alignments.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/merge_pairwise_alignments.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/seq/alg/src/merge_pairwise_alignments.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/randomize.hh:24, from /build/openstructure-2.3.1/modules/img/alg/src/randomize.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 22%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o -MF CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o.d -o CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/smooth_mask_image.cc [ 22%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o -MF CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o.d -o CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/pair_subst_weight_matrix.cc [ 24%] Linking CXX shared module ../../../stage/lib/python3.11/dist-packages/ost/info/_ost_info.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_info.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../stage/lib/python3.11/dist-packages/ost/info/_ost_info.so CMakeFiles/_ost_info.dir/wrap_info.cc.o -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/smooth_mask_image.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/info/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/info/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 24%] Built target _ost_info 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/ost_conop.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 24%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/processor.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/processor.cc.o -MF CMakeFiles/ost_conop.dir/processor.cc.o.d -o CMakeFiles/ost_conop.dir/processor.cc.o -c /build/openstructure-2.3.1/modules/conop/src/processor.cc [ 24%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/stat.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/stat.cc.o -MF CMakeFiles/ost_img_alg.dir/stat.cc.o.d -o CMakeFiles/ost_img_alg.dir/stat.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/stat.cc [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o -MF CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o.d -o CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/semiglobal_align.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /build/openstructure-2.3.1/modules/conop/src/processor.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/conop/src/processor.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/modules/seq/alg/src/impl/align_impl.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/semiglobal_align.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/semiglobal_align.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/stat.hh:30, from /build/openstructure-2.3.1/modules/img/alg/src/stat.cc:32: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/alg/src/stat.cc:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o -MF CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o.d -o CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/sequence_identity.cc [ 25%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o -MF CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o.d -o CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/stat_min_max.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/sequence_identity.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/alg/src/stat_min_max.cc:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/sequence_similarity.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/set:60, from /build/openstructure-2.3.1/modules/conop/src/amino_acids.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/conop/src/amino_acids.hh:61:42: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/src/variance_map.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/fstream:38, from /build/openstructure-2.3.1/modules/seq/alg/src/variance_map.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/distance_map.hh:33, from /build/openstructure-2.3.1/modules/seq/alg/src/variance_map.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o -MF CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o.d -o CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/alg_mirror.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/conop/src/conop.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/conop/src/conop.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/alg_mirror.hh:24, from /build/openstructure-2.3.1/modules/img/alg/src/alg_mirror.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o -MF CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o.d -o CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/hmm_pseudo_counts.cc [ 25%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_shift.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_shift.cc.o -MF CMakeFiles/ost_img_alg.dir/alg_shift.cc.o.d -o CMakeFiles/ost_img_alg.dir/alg_shift.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/alg_shift.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o -MF CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o.d -o CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o -c /build/openstructure-2.3.1/modules/conop/src/minimal_compound_lib.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/modules/conop/src/compound_lib_base.hh:5, from /build/openstructure-2.3.1/modules/conop/src/minimal_compound_lib.hh:5, from /build/openstructure-2.3.1/modules/conop/src/minimal_compound_lib.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/conop/src/compound.hh:22, from /build/openstructure-2.3.1/modules/conop/src/compound_lib_base.hh:4: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/alg_shift.hh:24, from /build/openstructure-2.3.1/modules/img/alg/src/alg_shift.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/threshold.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/threshold.cc.o -MF CMakeFiles/ost_img_alg.dir/threshold.cc.o.d -o CMakeFiles/ost_img_alg.dir/threshold.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/threshold.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/threshold.hh:25, from /build/openstructure-2.3.1/modules/img/alg/src/threshold.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o -MF CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o.d -o CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/discrete_shrink.cc [ 26%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o -MF CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o.d -o CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/src/hmm_score.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/src/discrete_shrink.hh:24, from /build/openstructure-2.3.1/modules/img/alg/src/discrete_shrink.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/alg/src/discrete_shrink.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformation_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformation_base.cc.o -MF CMakeFiles/ost_img_alg.dir/transformation_base.cc.o.d -o CMakeFiles/ost_img_alg.dir/transformation_base.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/transformation_base.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/hmm_score.hh:24, from /build/openstructure-2.3.1/modules/seq/alg/src/hmm_score.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/profile_handle.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/hmm_score.hh:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Linking CXX shared library ../../../../stage/lib/libost_seq_alg.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_seq_alg.so.2.3 -o ../../../../stage/lib/libost_seq_alg.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_seq.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_regex.so ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/alg/src/transformation_base.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/transformation_base.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/alg/src/transformation_base.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../../stage/lib/libost_seq_alg.so.2.3 ../../../../stage/lib/libost_seq_alg.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 26%] Built target ost_seq_alg 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod/CMakeFiles/_ost_img.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 26%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data.cc.o -MF CMakeFiles/_ost_img.dir/export_data.cc.o.d -o CMakeFiles/_ost_img.dir/export_data.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_data.cc [ 27%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformations.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformations.cc.o -MF CMakeFiles/ost_img_alg.dir/transformations.cc.o.d -o CMakeFiles/ost_img_alg.dir/transformations.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/transformations.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/modules/img/alg/src/transformation_base.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/transformations.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/transformations.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/img/alg/src/transformations.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o -MF CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o.d -o CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/fractional_shift.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/fft.hh:27, from /build/openstructure-2.3.1/modules/img/alg/src/fractional_shift.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/img/alg/src/fractional_shift.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/modules/img/base/pymod/export_data.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/polar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/polar.cc.o -MF CMakeFiles/ost_img_alg.dir/polar.cc.o.d -o CMakeFiles/ost_img_alg.dir/polar.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/polar.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/alg/src/polar.hh:24, from /build/openstructure-2.3.1/modules/img/alg/src/polar.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/modules/img/alg/src/polar.hh:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o -MF CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o.d -o CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/rscrosscorr.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o -MF CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o.d -o CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_data_algorithm.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/src/rscrosscorr.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_average.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_average.cc.o -MF CMakeFiles/ost_img_alg.dir/line_average.cc.o.d -o CMakeFiles/ost_img_alg.dir/line_average.cc.o -c /build/openstructure-2.3.1/modules/img/alg/src/line_average.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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/img/alg/src/line_average.hh:23, from /build/openstructure-2.3.1/modules/img/alg/src/line_average.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/base/pymod/export_data_algorithm.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Linking CXX shared library ../../../../stage/lib/libost_img_alg.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_img_alg.so.2.3 -o ../../../../stage/lib/libost_img_alg.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_img_alg.so.2.3.1 ../../../../stage/lib/libost_img_alg.so.2.3 ../../../../stage/lib/libost_img_alg.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Built target ost_img_alg make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom.cc.o -MF CMakeFiles/_ost_mol.dir/export_atom.cc.o.d -o CMakeFiles/_ost_mol.dir/export_atom.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_atom.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_extent.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_extent.cc.o -MF CMakeFiles/_ost_img.dir/export_extent.cc.o.d -o CMakeFiles/_ost_img.dir/export_extent.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_extent.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_atom.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/img/base/pymod/wrap_extent_iterator.hh:34, from /build/openstructure-2.3.1/modules/img/base/pymod/export_extent.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_handle.cc.o -MF CMakeFiles/_ost_img.dir/export_image_handle.cc.o.d -o CMakeFiles/_ost_img.dir/export_image_handle.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_image_handle.cc [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib_base.cc.o -MF CMakeFiles/ost_conop.dir/compound_lib_base.cc.o.d -o CMakeFiles/ost_conop.dir/compound_lib_base.cc.o -c /build/openstructure-2.3.1/modules/conop/src/compound_lib_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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/base/pymod/export_image_handle.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/modules/conop/src/compound_lib_base.hh:5, from /build/openstructure-2.3.1/modules/conop/src/compound_lib_base.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/conop/src/compound.hh:22, from /build/openstructure-2.3.1/modules/conop/src/compound_lib_base.hh:4: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/heuristic.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/heuristic.cc.o -MF CMakeFiles/ost_conop.dir/heuristic.cc.o.d -o CMakeFiles/ost_conop.dir/heuristic.cc.o -c /build/openstructure-2.3.1/modules/conop/src/heuristic.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /build/openstructure-2.3.1/modules/conop/src/heuristic.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/conop/src/heuristic.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/diag.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/diag.cc.o -MF CMakeFiles/ost_conop.dir/diag.cc.o.d -o CMakeFiles/ost_conop.dir/diag.cc.o -c /build/openstructure-2.3.1/modules/conop/src/diag.cc [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom_view.cc.o -MF CMakeFiles/_ost_mol.dir/export_atom_view.cc.o.d -o CMakeFiles/_ost_mol.dir/export_atom_view.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_atom_view.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/modules/conop/src/diag.hh:23, from /build/openstructure-2.3.1/modules/conop/src/diag.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/atom_handle.hh:22, from /build/openstructure-2.3.1/modules/conop/src/diag.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/rule_based.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/rule_based.cc.o -MF CMakeFiles/ost_conop.dir/rule_based.cc.o.d -o CMakeFiles/ost_conop.dir/rule_based.cc.o -c /build/openstructure-2.3.1/modules/conop/src/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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /build/openstructure-2.3.1/modules/conop/src/rule_based.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/conop/src/rule_based.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_atom_view.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_peak.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_peak.cc.o -MF CMakeFiles/_ost_img.dir/export_peak.cc.o.d -o CMakeFiles/_ost_img.dir/export_peak.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_peak.cc [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/model_check.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/model_check.cc.o -MF CMakeFiles/ost_conop.dir/model_check.cc.o.d -o CMakeFiles/ost_conop.dir/model_check.cc.o -c /build/openstructure-2.3.1/modules/conop/src/model_check.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/modules/conop/src/model_check.hh:4, from /build/openstructure-2.3.1/modules/conop/src/model_check.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/conop/src/model_check.cc:2: /build/openstructure-2.3.1/modules/conop/src/amino_acids.hh:61:42: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | 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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/peak.hh:31, from /build/openstructure-2.3.1/modules/img/base/pymod/export_peak.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bond.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bond.cc.o -MF CMakeFiles/_ost_mol.dir/export_bond.cc.o.d -o CMakeFiles/_ost_mol.dir/export_bond.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_bond.cc [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/compound.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/compound.cc.o -MF CMakeFiles/ost_conop.dir/compound.cc.o.d -o CMakeFiles/ost_conop.dir/compound.cc.o -c /build/openstructure-2.3.1/modules/conop/src/compound.cc [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib.cc.o -MF CMakeFiles/ost_conop.dir/compound_lib.cc.o.d -o CMakeFiles/ost_conop.dir/compound_lib.cc.o -c /build/openstructure-2.3.1/modules/conop/src/compound_lib.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/modules/conop/src/compound_lib_base.hh:5, from /build/openstructure-2.3.1/modules/conop/src/compound_lib.hh:27, from /build/openstructure-2.3.1/modules/conop/src/compound_lib.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/conop/src/compound_lib.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_bond.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_phase.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_phase.cc.o -MF CMakeFiles/_ost_img.dir/export_phase.cc.o.d -o CMakeFiles/_ost_img.dir/export_phase.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_phase.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-2.3.1/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/python/type_id.hpp:11, from /usr/include/boost/python/instance_holder.hpp:11, from /usr/include/boost/python/object/pointer_holder.hpp:14, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10: /usr/include/boost/operators.hpp: In instantiation of 'ost::img::Phase boost::operators_impl::operator+(const ost::img::Phase&, const ost::img::Phase&)': /usr/include/boost/python/operators.hpp:212:1: required from 'static PyObject* boost::python::detail::operator_l::apply::execute(lhs&, const rhs&) [with L = ost::img::Phase; R = ost::img::Phase; PyObject = _object; lhs = ost::img::Phase; rhs = ost::img::Phase]' /usr/include/boost/python/operators.hpp:154:15: required from 'void boost::python::detail::operator_::visit(ClassT&) const [with ClassT = boost::python::class_; boost::python::detail::operator_id id = boost::python::detail::op_add; L = boost::python::self_ns::self_t; R = boost::python::self_ns::self_t]' /usr/include/boost/python/def_visitor.hpp:31:34: required from 'static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >; classT = boost::python::class_]' /usr/include/boost/python/def_visitor.hpp:67:34: required from 'void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_; DerivedVisitor = boost::python::detail::operator_]' /usr/include/boost/python/class.hpp:221:22: required from 'boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::detail::operator_; W = ost::img::Phase; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_]' /build/openstructure-2.3.1/modules/img/base/pymod/export_phase.cc:40:9: required from here /usr/include/boost/operators.hpp:267:1: note: parameter passing for argument of type 'ost::img::Phase' when C++17 is enabled changed to match C++14 in GCC 10.1 267 | BOOST_BINARY_OPERATOR_COMMUTATIVE( addable, + ) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/ring_finder.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/ring_finder.cc.o -MF CMakeFiles/ost_conop.dir/ring_finder.cc.o.d -o CMakeFiles/ost_conop.dir/ring_finder.cc.o -c /build/openstructure-2.3.1/modules/conop/src/ring_finder.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_point.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_point.cc.o -MF CMakeFiles/_ost_img.dir/export_point.cc.o.d -o CMakeFiles/_ost_img.dir/export_point.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_point.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/conop/src/ring_finder.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Linking CXX shared library ../../../stage/lib/libost_conop.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_conop.dir/link.txt --verbose=1 In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_conop.so.2.3 -o ../../../stage/lib/libost_conop.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_conop.so.2.3 ../../../stage/lib/libost_conop.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Built target ost_conop 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o -MF CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o.d -o CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/svd_superpose.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point_list.hh:28, from /build/openstructure-2.3.1/modules/img/base/pymod/export_point.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/svd_superpose.hh:27, from /build/openstructure-2.3.1/modules/mol/alg/src/svd_superpose.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/modules/mol/alg/src/svd_superpose.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain.cc.o -MF CMakeFiles/_ost_mol.dir/export_chain.cc.o.d -o CMakeFiles/_ost_mol.dir/export_chain.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_chain.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_chain.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_progress.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_progress.cc.o -MF CMakeFiles/_ost_img.dir/export_progress.cc.o.d -o CMakeFiles/_ost_img.dir/export_progress.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_progress.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-2.3.1/modules/img/base/pymod/export_progress.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_raster_image.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_raster_image.cc.o -MF CMakeFiles/_ost_img.dir/export_raster_image.cc.o.d -o CMakeFiles/_ost_img.dir/export_raster_image.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_raster_image.cc [ 30%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/clash_score.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/clash_score.cc.o -MF CMakeFiles/ost_mol_alg.dir/clash_score.cc.o.d -o CMakeFiles/ost_mol_alg.dir/clash_score.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/clash_score.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-2.3.1/modules/img/base/pymod/export_raster_image.cc:25: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/raster_image/raster_image.hh:31, from /build/openstructure-2.3.1/modules/img/base/pymod/export_raster_image.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/modules/mol/alg/src/clash_score.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o -MF CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o.d -o CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/sec_structure_segments.cc [ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_size.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_size.cc.o -MF CMakeFiles/_ost_img.dir/export_size.cc.o.d -o CMakeFiles/_ost_img.dir/export_size.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_size.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/sec_structure_segments.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o -MF CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o.d -o CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/local_dist_diff_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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain_view.cc.o -MF CMakeFiles/_ost_mol.dir/export_chain_view.cc.o.d -o CMakeFiles/_ost_mol.dir/export_chain_view.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_chain_view.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/pymod/export_size.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/local_dist_diff_test.cc:4: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/iomanip:40, from /build/openstructure-2.3.1/modules/mol/alg/src/local_dist_diff_test.cc:1: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/modules/mol/alg/src/local_dist_diff_test.hh:24, from /build/openstructure-2.3.1/modules/mol/alg/src/local_dist_diff_test.cc:6: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/mol/alg/src/local_dist_diff_test.hh:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function 'std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const': /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ [ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_mask.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_mask.cc.o -MF CMakeFiles/_ost_img.dir/export_mask.cc.o.d -o CMakeFiles/_ost_img.dir/export_mask.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_mask.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_chain_view.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/polygon_mask.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/mask.hh:29, from /build/openstructure-2.3.1/modules/img/base/pymod/export_mask.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o -MF CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o.d -o CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/distance_test_common.cc [ 30%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_list.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_list.cc.o -MF CMakeFiles/_ost_img.dir/export_image_list.cc.o.d -o CMakeFiles/_ost_img.dir/export_image_list.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_image_list.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/distance_test_common.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/distance_test_common.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o -MF CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o.d -o CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o -c /build/openstructure-2.3.1/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_group.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_group.cc.o -MF CMakeFiles/_ost_mol.dir/export_coord_group.cc.o.d -o CMakeFiles/_ost_mol.dir/export_coord_group.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_coord_group.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/distance_rmsd_test.cc:2: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/distance_rmsd_test.cc:1: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/distance_rmsd_test.hh:24, from /build/openstructure-2.3.1/modules/mol/alg/src/distance_rmsd_test.cc:3: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function 'std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const': /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/base/pymod/export_image_list.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:53: In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:30: /usr/include/boost/variant/variant.hpp: In member function 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 30%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o -MF CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o.d -o CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/superpose_frames.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_group.hh:29, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_coord_group.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/superpose_frames.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/eigen3/Eigen/src/Core/util/Macros.h:679, from /usr/include/eigen3/Eigen/Core:19, from /usr/include/eigen3/Eigen/Eigenvalues:11, from /build/openstructure-2.3.1/modules/mol/alg/src/superpose_frames.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 31%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_map.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_map.cc.o -MF CMakeFiles/_ost_img.dir/export_map.cc.o.d -o CMakeFiles/_ost_img.dir/export_map.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/export_map.cc [ 31%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o -MF CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o.d -o CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_coord_frame.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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /build/openstructure-2.3.1/modules/img/base/pymod/export_map.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 31%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/wrap_img.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/wrap_img.cc.o -MF CMakeFiles/_ost_img.dir/wrap_img.cc.o.d -o CMakeFiles/_ost_img.dir/wrap_img.cc.o -c /build/openstructure-2.3.1/modules/img/base/pymod/wrap_img.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_coord_frame.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 31%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o -MF CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o.d -o CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/filter_clashes.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/filter_clashes.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/filter_clashes.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/mol/alg/src/filter_clashes.cc:24: /build/openstructure-2.3.1/modules/mol/alg/src/filter_clashes.hh: In member function 'std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const': /build/openstructure-2.3.1/modules/mol/alg/src/filter_clashes.hh:91:48: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ [ 31%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_editors.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_editors.cc.o -MF CMakeFiles/_ost_mol.dir/export_editors.cc.o.d -o CMakeFiles/_ost_mol.dir/export_editors.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_editors.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/modules/img/base/pymod/wrap_img.cc:33: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 31%] Linking CXX shared module ../../../../stage/lib/python3.11/dist-packages/ost/img/_ost_img.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_img.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/img/base/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/img/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 31%] Built target _ost_img 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src/CMakeFiles/ost_gfx.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 31%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/bitmap_io.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/bitmap_io.cc.o -MF CMakeFiles/ost_gfx.dir/bitmap_io.cc.o.d -o CMakeFiles/ost_gfx.dir/bitmap_io.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/bitmap_io.cc [ 31%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/exporter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/exporter.cc.o -MF CMakeFiles/ost_gfx.dir/exporter.cc.o.d -o CMakeFiles/ost_gfx.dir/exporter.cc.o -c /build/openstructure-2.3.1/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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_editors.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_editors.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gfx/src/exporter.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 31%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/collada_exporter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/collada_exporter.cc.o -MF CMakeFiles/ost_gfx.dir/collada_exporter.cc.o.d -o CMakeFiles/ost_gfx.dir/collada_exporter.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/collada_exporter.cc [ 31%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o -MF CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o.d -o CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/construct_cbeta.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/color.hh:31, from /build/openstructure-2.3.1/modules/gfx/src/scene.hh:37, from /build/openstructure-2.3.1/modules/gfx/src/collada_exporter.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/gfx/src/collada_exporter.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/construct_cbeta.cc:4: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/mol/alg/src/construct_cbeta.cc:1: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o -MF CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o.d -o CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/trajectory_analysis.cc [ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color.cc.o -MF CMakeFiles/ost_gfx.dir/color.cc.o.d -o CMakeFiles/ost_gfx.dir/color.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/color.hh:31, from /build/openstructure-2.3.1/modules/gfx/src/color.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/modules/gfx/src/color.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/mol/alg/src/trajectory_analysis.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/modules/mol/alg/src/trajectory_analysis.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/primitives.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/primitives.cc.o -MF CMakeFiles/ost_gfx.dir/primitives.cc.o.d -o CMakeFiles/ost_gfx.dir/primitives.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/primitives.cc [ 32%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity.cc.o -MF CMakeFiles/_ost_mol.dir/export_entity.cc.o.d -o CMakeFiles/_ost_mol.dir/export_entity.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_entity.cc [ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o -MF CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o.d -o CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/structure_analysis.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/primitives.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/primitives.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/gl_helper.hh:36, from /build/openstructure-2.3.1/modules/gfx/src/primitives.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/entity.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/entity.cc.o -MF CMakeFiles/ost_gfx.dir/entity.cc.o.d -o CMakeFiles/ost_gfx.dir/entity.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/entity.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/structure_analysis.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/structure_analysis.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_entity.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_entity.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/modules/gfx/src/entity.cc:36: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/gfx/src/entity.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o -MF CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o.d -o CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/consistency_checks.cc /build/openstructure-2.3.1/modules/gfx/src/entity.cc: In member function 'void ost::gfx::Entity::ColorBy(const String&, const ost::gfx::Color&, const ost::gfx::Color&, ost::mol::Prop::Level)': /build/openstructure-2.3.1/modules/gfx/src/entity.cc:965:72: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 965 | std::pair minmax = this->GetView().GetMinMax(prop, level); | ^ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/modules/mol/alg/src/consistency_checks.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/consistency_checks.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/pdbize.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/pdbize.cc.o -MF CMakeFiles/ost_mol_alg.dir/pdbize.cc.o.d -o CMakeFiles/ost_mol_alg.dir/pdbize.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/pdbize.cc [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/symmetry_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/symmetry_node.cc.o -MF CMakeFiles/ost_gfx.dir/symmetry_node.cc.o.d -o CMakeFiles/ost_gfx.dir/symmetry_node.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/symmetry_node.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/modules/mol/alg/src/pdbize.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/pdbize.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/mol/alg/src/pdbize.hh:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/symmetry_node.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/symmetry_node.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/gl_helper.hh:36, from /build/openstructure-2.3.1/modules/gfx/src/symmetry_node.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_node.cc.o -MF CMakeFiles/ost_gfx.dir/gfx_node.cc.o.d -o CMakeFiles/ost_gfx.dir/gfx_node.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/gfx_node.cc [ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o -MF CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o.d -o CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/adjacency_bitmap.cc In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/gfx_object_base.hh:26, from /build/openstructure-2.3.1/modules/gfx/src/gfx_object.hh:40, from /build/openstructure-2.3.1/modules/gfx/src/gfx_node.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/bind/mem_fn.hpp:25, from /usr/include/boost/mem_fn.hpp:22, from /usr/include/boost/bind/bind.hpp:26, from /usr/include/boost/bind.hpp:29: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_factory.hh:32, from /build/openstructure-2.3.1/modules/mol/alg/src/adjacency_bitmap.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_factory.hh:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/modules/mol/alg/src/adjacency_bitmap.hh:9, from /build/openstructure-2.3.1/modules/mol/alg/src/adjacency_bitmap.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o -MF CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o.d -o CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_object.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_object.cc.o -MF CMakeFiles/ost_gfx.dir/gfx_object.cc.o.d -o CMakeFiles/ost_gfx.dir/gfx_object.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/gfx_object.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:2: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:1: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:3: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_property_mapper.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/gfx_object.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/gfx_object.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:53: In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:866:17, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/12/bits/basic_string.h:1064:16: warning: '*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length' may be used uninitialized [-Wmaybe-uninitialized] 1064 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:30: /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/c++/12/ios:40: In static member function 'static constexpr void std::char_traits::assign(char_type&, const char_type&)', inlined from 'static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:421:23, inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:867:18, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/12/bits/char_traits.h:354:16: warning: '((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]' may be used uninitialized [-Wmaybe-uninitialized] 354 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::CalcContactNodeDegree(const ContactList&)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:866:17, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:445:21: /usr/include/c++/12/bits/basic_string.h:1064:16: warning: '*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length' may be used uninitialized [-Wmaybe-uninitialized] 1064 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In static member function 'static constexpr void std::char_traits::assign(char_type&, const char_type&)', inlined from 'static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:421:23, inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:867:18, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:445:21: /usr/include/c++/12/bits/char_traits.h:354:16: warning: '((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]' may be used uninitialized [-Wmaybe-uninitialized] 354 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:445:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:445:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:445:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:445:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:866:17, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:448:21: /usr/include/c++/12/bits/basic_string.h:1064:16: warning: '*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length' may be used uninitialized [-Wmaybe-uninitialized] 1064 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In static member function 'static constexpr void std::char_traits::assign(char_type&, const char_type&)', inlined from 'static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:421:23, inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:867:18, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:448:21: /usr/include/c++/12/bits/char_traits.h:354:16: warning: '((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]' may be used uninitialized [-Wmaybe-uninitialized] 354 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:448:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:448:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:448:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:448:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:866:17, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:453:23: /usr/include/c++/12/bits/basic_string.h:1064:16: warning: '*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length' may be used uninitialized [-Wmaybe-uninitialized] 1064 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In static member function 'static constexpr void std::char_traits::assign(char_type&, const char_type&)', inlined from 'static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:421:23, inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:867:18, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:453:23: /usr/include/c++/12/bits/char_traits.h:354:16: warning: '((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]' may be used uninitialized [-Wmaybe-uninitialized] 354 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:453:23: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:453:23: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:453:23: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)' at /build/openstructure-2.3.1/modules/mol/alg/src/contact_overlap.cc:453:23: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ [ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/domain_find.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/domain_find.cc.o -MF CMakeFiles/ost_mol_alg.dir/domain_find.cc.o.d -o CMakeFiles/ost_mol_alg.dir/domain_find.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/domain_find.cc [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_prim.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_prim.cc.o -MF CMakeFiles/ost_gfx.dir/gfx_prim.cc.o.d -o CMakeFiles/ost_gfx.dir/gfx_prim.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/gfx_prim.cc [ 34%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_view.cc.o -MF CMakeFiles/_ost_mol.dir/export_entity_view.cc.o.d -o CMakeFiles/_ost_mol.dir/export_entity_view.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_entity_view.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/gfx_prim.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/gfx_prim.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/gfx/src/gfx_prim.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o -MF CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o.d -o CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/gfx_test_object.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_factory.hh:32, from /build/openstructure-2.3.1/modules/mol/alg/src/domain_find.cc:3: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/thread/exceptions.hpp:20, from /usr/include/boost/thread/pthread/thread_data.hpp:10, from /usr/include/boost/thread/thread_only.hpp:17, from /usr/include/boost/thread/thread.hpp:12, from /usr/include/boost/thread.hpp:13, from /build/openstructure-2.3.1/modules/mol/alg/src/domain_find.cc:1: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/modules/mol/alg/src/domain_find.cc:9: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/gfx_object_base.hh:26, from /build/openstructure-2.3.1/modules/gfx/src/gfx_object.hh:40, from /build/openstructure-2.3.1/modules/gfx/src/gfx_test_object.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/gfx_test_object.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/boost/system/error_code.hpp:17, from /usr/include/boost/filesystem/path_traits.hpp:22, from /usr/include/boost/filesystem/path.hpp:26, from /usr/include/boost/filesystem/operations.hpp:26, from /build/openstructure-2.3.1/modules/gfx/src/gfx_test_object.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_entity_view.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/input.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/input.cc.o -MF CMakeFiles/ost_gfx.dir/input.cc.o.d -o CMakeFiles/ost_gfx.dir/input.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/input.cc [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/prim_list.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/prim_list.cc.o -MF CMakeFiles/ost_gfx.dir/prim_list.cc.o.d -o CMakeFiles/ost_gfx.dir/prim_list.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/prim_list.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/color.hh:31, from /build/openstructure-2.3.1/modules/gfx/src/scene.hh:37, from /build/openstructure-2.3.1/modules/gfx/src/prim_list.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/atom_handle.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/prim_list.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o -MF CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o.d -o CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/similarity_matrix.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/mol/alg/src/similarity_matrix.hh:7, from /build/openstructure-2.3.1/modules/mol/alg/src/similarity_matrix.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/fstream:38, from /build/openstructure-2.3.1/modules/mol/alg/src/similarity_matrix.hh:5: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/scene.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/scene.cc.o -MF CMakeFiles/ost_gfx.dir/scene.cc.o.d -o CMakeFiles/ost_gfx.dir/scene.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/scene.cc [ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/accessibility.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/accessibility.cc.o -MF CMakeFiles/ost_mol_alg.dir/accessibility.cc.o.d -o CMakeFiles/ost_mol_alg.dir/accessibility.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/accessibility.hh:23, from /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:64: /usr/include/c++/12/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float]': /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:312:40: required from here /usr/include/c++/12/bits/stl_pair.h:741:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 741 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/scene.cc:40: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/scene.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:53, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /usr/include/c++/12/complex:45, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:24: In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_base.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:27: /usr/include/boost/variant/variant.hpp: In member function 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ [ 34%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_property_id.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_property_id.cc.o -MF CMakeFiles/_ost_mol.dir/export_property_id.cc.o.d -o CMakeFiles/_ost_mol.dir/export_property_id.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_property_id.cc [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/selection.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/selection.cc.o -MF CMakeFiles/ost_gfx.dir/selection.cc.o.d -o CMakeFiles/ost_gfx.dir/selection.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/selection.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/selection.hh:26, from /build/openstructure-2.3.1/modules/gfx/src/selection.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/surface.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/surface.cc.o -MF CMakeFiles/ost_gfx.dir/surface.cc.o.d -o CMakeFiles/ost_gfx.dir/surface.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/surface.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_property_id.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/surface.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /build/openstructure-2.3.1/modules/gfx/src/surface.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query.cc.o -MF CMakeFiles/_ost_mol.dir/export_query.cc.o.d -o CMakeFiles/_ost_mol.dir/export_query.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_query.cc In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:778:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:778:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:778:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:778:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:866:17, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:785:32: /usr/include/c++/12/bits/basic_string.h:1064:16: warning: '*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length' may be used uninitialized [-Wmaybe-uninitialized] 1064 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/c++/12/ios:40: In static member function 'static constexpr void std::char_traits::assign(char_type&, const char_type&)', inlined from 'static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:421:23, inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:867:18, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:785:32: /usr/include/c++/12/bits/char_traits.h:354:16: warning: '((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]' may be used uninitialized [-Wmaybe-uninitialized] 354 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:785:32: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:785:32: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:785:32: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:785:32: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:866:17, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:788:21: /usr/include/c++/12/bits/basic_string.h:1064:16: warning: '*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length' may be used uninitialized [-Wmaybe-uninitialized] 1064 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In static member function 'static constexpr void std::char_traits::assign(char_type&, const char_type&)', inlined from 'static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:421:23, inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:867:18, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:788:21: /usr/include/c++/12/bits/char_traits.h:354:16: warning: '((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]' may be used uninitialized [-Wmaybe-uninitialized] 354 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:788:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:788:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:788:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:788:21: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:803:35: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:803:35: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:803:35: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:803:35: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:866:17, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:808:35: /usr/include/c++/12/bits/basic_string.h:1064:16: warning: '*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length' may be used uninitialized [-Wmaybe-uninitialized] 1064 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In static member function 'static constexpr void std::char_traits::assign(char_type&, const char_type&)', inlined from 'static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:421:23, inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:867:18, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:808:35: /usr/include/c++/12/bits/char_traits.h:354:16: warning: '((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]' may be used uninitialized [-Wmaybe-uninitialized] 354 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:808:35: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:808:35: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:808:35: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)' at /build/openstructure-2.3.1/modules/mol/alg/src/accessibility.cc:808:35: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ [ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient.cc.o -MF CMakeFiles/ost_gfx.dir/gradient.cc.o.d -o CMakeFiles/ost_gfx.dir/gradient.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 35%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o -MF CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o.d -o CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/sec_struct.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_query.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/color.hh:31, from /build/openstructure-2.3.1/modules/gfx/src/gradient.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/gradient.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/gfx/src/gradient.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:25, from /build/openstructure-2.3.1/modules/mol/alg/src/sec_struct.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:64: /usr/include/c++/12/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float; _T2 = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float]': /build/openstructure-2.3.1/modules/mol/alg/src/sec_struct.cc:567:31: required from here /usr/include/c++/12/bits/stl_pair.h:741:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 741 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient_manager.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient_manager.cc.o -MF CMakeFiles/ost_gfx.dir/gradient_manager.cc.o.d -o CMakeFiles/ost_gfx.dir/gradient_manager.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/gradient_manager.cc [ 35%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue.cc.o -MF CMakeFiles/_ost_mol.dir/export_residue.cc.o.d -o CMakeFiles/_ost_mol.dir/export_residue.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_residue.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/gfx/src/gradient_manager.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/boost/system/error_code.hpp:17, from /usr/include/boost/filesystem/path_traits.hpp:22, from /usr/include/boost/filesystem/path.hpp:26, from /usr/include/boost/filesystem/operations.hpp:26, from /build/openstructure-2.3.1/modules/gfx/src/gradient_manager.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 35%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o -MF CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o.d -o CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/nonstandard.cc [ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array.cc.o -MF CMakeFiles/ost_gfx.dir/vertex_array.cc.o.d -o CMakeFiles/ost_gfx.dir/vertex_array.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/vertex_array.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/mol/alg/src/nonstandard.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/mol/alg/src/nonstandard.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/vertex_array.hh:34, from /build/openstructure-2.3.1/modules/gfx/src/vertex_array.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /usr/include/boost/format.hpp:17, from /build/openstructure-2.3.1/modules/gfx/src/vertex_array.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_residue.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 36%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/molck.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/molck.cc.o -MF CMakeFiles/ost_mol_alg.dir/molck.cc.o.d -o CMakeFiles/ost_mol_alg.dir/molck.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/molck.cc /build/openstructure-2.3.1/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-2.3.1/modules/gfx/src/vertex_array.cc:1239:8: warning: 'void ost::gfx::{anonymous}::render_aalines(AALineList&, float, float)' defined but not used [-Wunused-function] 1239 | void render_aalines(AALineList& line_list, float w, float r) | ^~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /build/openstructure-2.3.1/modules/mol/alg/src/molck.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/mol/alg/src/molck.cc:4: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:61:42: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/vertex_array_helper.hh:23, from /build/openstructure-2.3.1/modules/gfx/src/vertex_array_helper.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/gfx/src/vertex_array_helper.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 36%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/material.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/material.cc.o -MF CMakeFiles/ost_gfx.dir/material.cc.o.d -o CMakeFiles/ost_gfx.dir/material.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/material.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/color.hh:31, from /build/openstructure-2.3.1/modules/gfx/src/material.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/material.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/iterator:61, from /usr/include/boost/operators.hpp:98, from /build/openstructure-2.3.1/modules/gfx/src/color.hh:28: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 36%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/povray.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/povray.cc.o -MF CMakeFiles/ost_gfx.dir/povray.cc.o.d -o CMakeFiles/ost_gfx.dir/povray.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/povray.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/color.hh:31, from /build/openstructure-2.3.1/modules/gfx/src/povray.hh:31, from /build/openstructure-2.3.1/modules/gfx/src/povray.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/gfx/src/povray.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:53, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /usr/include/c++/12/complex:45, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:24: In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:866:17, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)' at /build/openstructure-2.3.1/modules/mol/alg/src/find_membrane.cc:1038:20: /usr/include/c++/12/bits/basic_string.h:1064:16: warning: '*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length' may be used uninitialized [-Wmaybe-uninitialized] 1064 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:30: /usr/include/boost/variant/variant.hpp: In function 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/c++/12/ios:40: In static member function 'static constexpr void std::char_traits::assign(char_type&, const char_type&)', inlined from 'static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:421:23, inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:867:18, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)' at /build/openstructure-2.3.1/modules/mol/alg/src/find_membrane.cc:1038:20: /usr/include/c++/12/bits/char_traits.h:354:16: warning: '((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]' may be used uninitialized [-Wmaybe-uninitialized] 354 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)' at /build/openstructure-2.3.1/modules/mol/alg/src/find_membrane.cc:1038:20: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)' at /build/openstructure-2.3.1/modules/mol/alg/src/find_membrane.cc:1038:20: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)' at /build/openstructure-2.3.1/modules/mol/alg/src/find_membrane.cc:1038:20: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)' at /build/openstructure-2.3.1/modules/mol/alg/src/find_membrane.cc:1038:20: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function 'ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ [ 36%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gost_exporter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gost_exporter.cc.o -MF CMakeFiles/ost_gfx.dir/gost_exporter.cc.o.d -o CMakeFiles/ost_gfx.dir/gost_exporter.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/gost_exporter.cc [ 36%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -MF CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o.d -o CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/entity_to_density.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/color.hh:31, from /build/openstructure-2.3.1/modules/gfx/src/scene.hh:37, from /build/openstructure-2.3.1/modules/gfx/src/gost_exporter.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/gfx/src/gost_exporter.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 36%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/texture.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/texture.cc.o -MF CMakeFiles/ost_gfx.dir/texture.cc.o.d -o CMakeFiles/ost_gfx.dir/texture.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/texture.cc [ 36%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color_ops/color_op.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/dft.hh:24, from /build/openstructure-2.3.1/modules/mol/alg/src/entity_to_density.cc:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/mol/alg/src/entity_to_density.cc:1: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh:24, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/color_op.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 36%] Linking CXX shared library ../../../../stage/lib/libost_mol_alg.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/atom_scattering_properties.txt /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/atom_scattering_properties.txt cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/stereo_chemical_props.txt /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/stereo_chemical_props.txt cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_mol_alg.so.2.3 -o ../../../../stage/lib/libost_mol_alg.so.2.3.1 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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../../stage/lib/libost_img_alg.so.2.3.1 ../../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../../stage/lib/libost_conop.so.2.3.1 ../../../../stage/lib/libost_img.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_db.so.2.3.1 ../../../../stage/lib/libost_seq.so.2.3.1 ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libsqlite3.so [ 36%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_element_color_op.cc cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../../stage/lib/libost_mol_alg.so.2.3 ../../../../stage/lib/libost_mol_alg.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 36%] Built target ost_mol_alg 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 36%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o -MF CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o.d -o CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o -c /build/openstructure-2.3.1/modules/img/alg/pymod/wrap_alg.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_element_color_op.hh:24, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_element_color_op.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_element_color_op.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 36%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue_view.cc.o -MF CMakeFiles/_ost_mol.dir/export_residue_view.cc.o.d -o CMakeFiles/_ost_mol.dir/export_residue_view.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_residue_view.cc [ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_chain_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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/auto_correlate.hh:24, from /build/openstructure-2.3.1/modules/img/alg/pymod/wrap_alg.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_chain_color_op.hh:23, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_chain_color_op.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_chain_color_op.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color_ops/uniform_color_op.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_residue_view.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/uniform_color_op.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/dyn_cast.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/uniform_color_op.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color_ops/gradient_color_op.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/gradient_color_op.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color_ops/entity_view_color_op.cc [ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_surface.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_surface.cc.o -MF CMakeFiles/_ost_mol.dir/export_surface.cc.o.d -o CMakeFiles/_ost_mol.dir/export_surface.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_surface.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/entity_view_color_op.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color_ops/basic_gradient_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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_surface.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/basic_gradient_color_op.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/basic_gradient_color_op.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_handle.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:31: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_filter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_filter.cc.o -MF CMakeFiles/_ost_img_alg.dir/export_filter.cc.o.d -o CMakeFiles/_ost_img_alg.dir/export_filter.cc.o -c /build/openstructure-2.3.1/modules/img/alg/pymod/export_filter.cc [ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color_ops/gradient_level_color_op.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/gradient_level_color_op.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/dyn_cast.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/gradient_level_color_op.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/entity_renderer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/gaussian.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/filter.hh:30, from /build/openstructure-2.3.1/modules/img/alg/pymod/export_filter.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_op.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/impl/entity_renderer.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gl_helper.hh:36, from /build/openstructure-2.3.1/modules/gfx/src/impl/entity_renderer.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o -MF CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/entity_detail.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gfx/src/impl/entity_detail.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/atom_view.hh:25, from /build/openstructure-2.3.1/modules/gfx/src/impl/entity_detail.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o -MF CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o.d -o CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_bounding_box.cc [ 39%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o -MF CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o.d -o CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o -c /build/openstructure-2.3.1/modules/img/alg/pymod/export_normalizer.cc [ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o -c /build/openstructure-2.3.1/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_bounding_box.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm_linear.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm.hh:30, from /build/openstructure-2.3.1/modules/img/alg/pymod/export_normalizer.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/impl/cartoon_renderer.hh:27, from /build/openstructure-2.3.1/modules/gfx/src/impl/cartoon_renderer.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o -MF CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o.d -o CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_query_view_wrapper.cc [ 39%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o -MF CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o.d -o CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o -c /build/openstructure-2.3.1/modules/img/alg/pymod/export_transcendentals.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_query_view_wrapper.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/transcendentals.hh:34, from /build/openstructure-2.3.1/modules/img/alg/pymod/export_transcendentals.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_torsion.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_torsion.cc.o -MF CMakeFiles/_ost_mol.dir/export_torsion.cc.o.d -o CMakeFiles/_ost_mol.dir/export_torsion.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_torsion.cc [ 39%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_polar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -MF CMakeFiles/_ost_img_alg.dir/export_polar.cc.o.d -o CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -c /build/openstructure-2.3.1/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-2.3.1/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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/polar.hh:24, from /build/openstructure-2.3.1/modules/img/alg/pymod/export_polar.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Linking CXX shared module ../../../../stage/lib/python3.11/dist-packages/ost/img/alg/_ost_img_alg.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_img_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/img/alg/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/img/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 39%] Built target _ost_img_alg make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src/CMakeFiles/ost_io.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 39%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/io_manager.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/io_manager.cc.o -MF CMakeFiles/ost_io.dir/io_manager.cc.o.d -o CMakeFiles/ost_io.dir/io_manager.cc.o -c /build/openstructure-2.3.1/modules/io/src/io_manager.cc [ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/custom_renderer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /build/openstructure-2.3.1/modules/io/src/io_manager.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_visitor.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_visitor.cc.o -MF CMakeFiles/_ost_mol.dir/export_visitor.cc.o.d -o CMakeFiles/_ost_mol.dir/export_visitor.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_visitor.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_detail.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/connect_renderer_base.hh:23, from /build/openstructure-2.3.1/modules/gfx/src/impl/custom_renderer.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/impl/custom_renderer.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/connect_renderer_base.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/cpk_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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_visitor.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:32, from /build/openstructure-2.3.1/modules/gfx/src/impl/cpk_renderer.hh:24, from /build/openstructure-2.3.1/modules/gfx/src/impl/cpk_renderer.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/impl/cpk_renderer.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 40%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/convert.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/convert.cc.o -MF CMakeFiles/ost_io.dir/convert.cc.o.d -o CMakeFiles/ost_io.dir/convert.cc.o -c /build/openstructure-2.3.1/modules/io/src/convert.cc [ 40%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/wrap_mol.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/wrap_mol.cc.o -MF CMakeFiles/_ost_mol.dir/wrap_mol.cc.o.d -o CMakeFiles/_ost_mol.dir/wrap_mol.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/wrap_mol.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/debug_renderer.cc [ 41%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/io_utils.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/io_utils.cc.o -MF CMakeFiles/ost_io.dir/io_utils.cc.o.d -o CMakeFiles/ost_io.dir/io_utils.cc.o -c /build/openstructure-2.3.1/modules/io/src/io_utils.cc [ 41%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/entity_io_crd_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer_base.hh:27, from /build/openstructure-2.3.1/modules/gfx/src/impl/debug_renderer.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/impl/debug_renderer.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer_base.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/editor_base.hh:27, from /build/openstructure-2.3.1/modules/mol/base/pymod/wrap_mol.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/simple_renderer.cc [ 41%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -MF CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o.d -o CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -c /build/openstructure-2.3.1/modules/mol/base/pymod/export_entity_property_mapper.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_crd_handler.cc:33: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_crd_handler.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gfx/src/impl/simple_renderer.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gl_helper.hh:36, from /build/openstructure-2.3.1/modules/gfx/src/impl/simple_renderer.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_property_mapper.hh:29, from /build/openstructure-2.3.1/modules/mol/base/pymod/export_entity_property_mapper.cc:3: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/sline_renderer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/backbone_trace.hh:26, from /build/openstructure-2.3.1/modules/gfx/src/impl/sline_renderer.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/impl/sline_renderer.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity_fw.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/impl/sline_renderer.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Linking CXX shared module ../../../../stage/lib/python3.11/dist-packages/ost/mol/_ost_mol.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_mol.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/mol/base/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 41%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 41%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_sequence.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_sequence.cc.o -MF CMakeFiles/_ost_seq.dir/export_sequence.cc.o.d -o CMakeFiles/_ost_seq.dir/export_sequence.cc.o -c /build/openstructure-2.3.1/modules/seq/base/pymod/export_sequence.cc [ 41%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pqr_handler.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/line_trace_renderer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/backbone_trace.hh:26, from /build/openstructure-2.3.1/modules/gfx/src/impl/line_trace_renderer.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/impl/line_trace_renderer.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pqr_handler.cc:35: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pqr_handler.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/seq/base/pymod/export_sequence.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/modules/seq/base/pymod/export_sequence.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /build/openstructure-2.3.1/modules/seq/base/pymod/export_sequence.cc:37: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mae_handler.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o -MF CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/connect_renderer_base.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gfx/src/impl/connect_renderer_base.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mae_handler.cc:38: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mae_handler.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o -MF CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/trace_renderer_base.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gfx/src/impl/trace_renderer_base.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o -MF CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o.d -o CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/pdb_reader.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o -MF CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/mapped_property.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_property_mapper.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/impl/mapped_property.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_property_mapper.hh:28: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_reader.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/algorithm:60, from /usr/include/boost/iostreams/filter/gzip.hpp:21, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_reader.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_reader.hh:28, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_reader.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o -MF CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/tabulated_trig.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/trace_renderer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/impl/trace_renderer.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o -MF CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/fast_spheres.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gfx/src/impl/fast_spheres.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/render_options/render_options.cc [ 43%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o -MF CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o.d -o CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o -c /build/openstructure-2.3.1/modules/seq/base/pymod/export_profile_handle.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/render_options/render_options.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/input.hh:30, from /build/openstructure-2.3.1/modules/gfx/src/render_options/render_options.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pdb_handler.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/render_options/line_render_options.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/render_options/custom_render_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/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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pdb_handler.cc:35: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pdb_handler.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/render_options/cpk_render_options.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/render_options/simple_render_options.cc [ 43%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o -MF CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o.d -o CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/pdb_writer.cc In file included from /usr/include/c++/12/bits/stl_algobase.h:64, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/modules/gfx/src/render_options/simple_render_options.hh:26, from /build/openstructure-2.3.1/modules/gfx/src/render_options/simple_render_options.cc:23: /usr/include/c++/12/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float]': /build/openstructure-2.3.1/modules/gfx/src/render_options/simple_render_options.cc:81:31: required from here /usr/include/c++/12/bits/stl_pair.h:741:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 741 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/render_options/sline_render_options.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/render_options/line_trace_render_options.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_writer.cc:35: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/locale:39, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_writer.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/render_options/cartoon_render_options.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/render_options/trace_render_options.cc [ 44%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/color_ops/map_handle_color_op.cc [ 44%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/wrap_seq.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -MF CMakeFiles/_ost_seq.dir/wrap_seq.cc.o.d -o CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -c /build/openstructure-2.3.1/modules/seq/base/pymod/wrap_seq.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/modules/gfx/src/color_ops/map_handle_color_op.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 44%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/map_iso.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/map_iso.cc.o -MF CMakeFiles/ost_gfx.dir/map_iso.cc.o.d -o CMakeFiles/ost_gfx.dir/map_iso.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/map_iso.cc [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/entity_io_sdf_handler.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 44%] Linking CXX shared module ../../../../stage/lib/python3.11/dist-packages/ost/seq/_ost_seq.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_seq.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_regex.so ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/discrete_shrink.hh:24, from /build/openstructure-2.3.1/modules/gfx/src/map_iso.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/map_iso.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/seq/base/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 44%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 44%] Building CXX object modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_bindings_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o -MF CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o.d -o CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o -c /build/openstructure-2.3.1/modules/bindings/pymod/export_tmalign.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_writer.hh:35, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_sdf_handler.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_sdf_handler.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mmcif_handler.cc [ 44%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/map_slab.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/map_slab.cc.o -MF CMakeFiles/ost_gfx.dir/map_slab.cc.o.d -o CMakeFiles/ost_gfx.dir/map_slab.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/map_slab.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-2.3.1/modules/bindings/pymod/export_tmalign.cc:20: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/bindings/wrap_tmalign.hh:24, from /build/openstructure-2.3.1/modules/bindings/pymod/export_tmalign.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mmcif_handler.cc:35: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mmcif_handler.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/stat.hh:30, from /build/openstructure-2.3.1/modules/gfx/src/map_slab.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/modules/gfx/src/map_slab.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/gfx/src/map_slab.cc: In function 'std::pair ost::gfx::{anonymous}::calc_sr(float, float, float, float, float, float)': /build/openstructure-2.3.1/modules/gfx/src/map_slab.cc:182:53: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 182 | float cx, float cy) | ^ [ 44%] Building CXX object modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_bindings_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -MF CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o.d -o CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -c /build/openstructure-2.3.1/modules/bindings/pymod/wrap_bindings.cc [ 44%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o -MF CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen.cc [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o -MF CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o.d -o CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/sdf_reader.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 44%] Linking CXX shared module ../../../stage/lib/python3.11/dist-packages/ost/bindings/_ost_bindings.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_bindings.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_bindings.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/lga.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./lga.pyc\",\"lga.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/hbplus.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./hbplus.pyc\",\"hbplus.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/msms.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./msms.pyc\",\"msms.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/tmtools.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./tmtools.pyc\",\"tmtools.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/dssp.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./dssp.pyc\",\"dssp.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/clustalw.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./clustalw.pyc\",\"clustalw.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/utils.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./utils.pyc\",\"utils.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/naccess.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./naccess.pyc\",\"naccess.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/hhblits.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./hhblits.pyc\",\"hhblits.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/hhblits2.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./hhblits2.pyc\",\"hhblits2.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/hhblits3.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./hhblits3.pyc\",\"hhblits3.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/blast.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./blast.pyc\",\"blast.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/cadscore.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./cadscore.pyc\",\"cadscore.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/kclust.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./kclust.pyc\",\"kclust.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/ialign.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./ialign.pyc\",\"ialign.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/bindings/pymod/mmseqs2.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/bindings/./mmseqs2.pyc\",\"mmseqs2.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 44%] Built target _ost_bindings 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/db/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod/CMakeFiles/_ost_db.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 44%] Building CXX object modules/db/pymod/CMakeFiles/_ost_db.dir/export_linear_db.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_db_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/pymod/CMakeFiles/_ost_db.dir/export_linear_db.cc.o -MF CMakeFiles/_ost_db.dir/export_linear_db.cc.o.d -o CMakeFiles/_ost_db.dir/export_linear_db.cc.o -c /build/openstructure-2.3.1/modules/db/pymod/export_linear_db.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/sdf_reader.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/algorithm/string/std/string_traits.hpp:15, from /usr/include/boost/algorithm/string/std_containers_traits.hpp:19, from /usr/include/boost/algorithm/string.hpp:18, from /build/openstructure-2.3.1/modules/io/src/mol/sdf_reader.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 44%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o -MF CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_s.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:24, from /build/openstructure-2.3.1/modules/db/pymod/export_linear_db.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_s.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/shared_array.hpp:19, from /usr/include/boost/shared_array.hpp:17, from /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_s.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 45%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o -MF CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o.d -o CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/sdf_writer.cc [ 45%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o -MF CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_o.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/vertex_array.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/map_iso_prop.hh:26, from /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_o.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/shared_array.hpp:19, from /usr/include/boost/shared_array.hpp:17, from /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_o.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 45%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o -MF CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/map_octree.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/sdf_writer.hh:35, from /build/openstructure-2.3.1/modules/io/src/mol/sdf_writer.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/mol/sdf_writer.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/vector:63, from /usr/include/c++/12/functional:62, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:14, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10: /usr/include/c++/12/bits/stl_uninitialized.h: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ost::db::AssemblyInfo*]': /usr/include/c++/12/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In static member function 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ost::db::AssemblyInfo*; bool _TrivialValueTypes = false]', inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ost::db::AssemblyInfo*]' at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ost::db::AssemblyInfo*; _Tp = ost::db::AssemblyInfo]' at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ost::db::AssemblyInfo; _Alloc = std::allocator]' at /usr/include/c++/12/bits/stl_vector.h:601:31, inlined from 'ost::db::LinearIndexer::LinearIndexer(const ost::db::LinearIndexer&)' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/linear_indexer.hh:58:7, inlined from 'boost::python::objects::pointer_holder::pointer_holder(PyObject*, A0) [with A0 = boost::reference_wrapper; Pointer = boost::shared_ptr; Value = ost::db::LinearIndexer]' at /usr/include/boost/python/object/pointer_holder.hpp:195:15, inlined from 'static Holder* boost::python::objects::make_instance::construct(void*, PyObject*, boost::reference_wrapper) [with T = ost::db::LinearIndexer; Holder = boost::python::objects::pointer_holder, ost::db::LinearIndexer>]' at /usr/include/boost/python/object/make_instance.hpp:72:16, inlined from 'static PyObject* boost::python::objects::make_instance_impl::execute(Arg&) [with Arg = const boost::reference_wrapper; T = ost::db::LinearIndexer; Holder = boost::python::objects::pointer_holder, ost::db::LinearIndexer>; Derived = boost::python::objects::make_instance, ost::db::LinearIndexer> >]' at /usr/include/boost/python/object/make_instance.hpp:46:31, inlined from 'static PyObject* boost::python::objects::class_cref_wrapper::convert(const Src&) [with Src = ost::db::LinearIndexer; MakeInstance = boost::python::objects::make_instance, ost::db::LinearIndexer> >]' at /usr/include/boost/python/object/class_wrapper.hpp:29:37, inlined from 'static PyObject* boost::python::converter::as_to_python_function::convert(const void*) [with T = ost::db::LinearIndexer; ToPython = boost::python::objects::class_cref_wrapper, ost::db::LinearIndexer> > >]' at /usr/include/boost/python/converter/as_to_python_function.hpp:40:33: /usr/include/c++/12/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/io/src/mol/sdf_writer.hh: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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:38, from /build/openstructure-2.3.1/modules/gfx/src/impl/map_octree.hh:22, from /build/openstructure-2.3.1/modules/gfx/src/impl/map_octree.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:32: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/gfx/src/impl/map_octree.cc: In member function 'std::pair ost::gfx::impl::MapOctree::BuildOctreeRec(const ost::gfx::impl::OcRangeVector&, uint16_t, ost::img::image_state::RealSpatialImageState*, const ost::img::Extent&, ost::gfx::impl::OctreeNode&)': /build/openstructure-2.3.1/modules/gfx/src/impl/map_octree.cc:84:68: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 84 | OctreeNode& parent) | ^ [ 45%] Building CXX object modules/db/pymod/CMakeFiles/_ost_db.dir/wrap_db.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_db_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/pymod/CMakeFiles/_ost_db.dir/wrap_db.cc.o -MF CMakeFiles/_ost_db.dir/wrap_db.cc.o.d -o CMakeFiles/_ost_db.dir/wrap_db.cc.o -c /build/openstructure-2.3.1/modules/db/pymod/wrap_db.cc [ 45%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -MF CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -c /build/openstructure-2.3.1/modules/gfx/src/impl/octree_isocont.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/octree_isocont.hh:27, from /build/openstructure-2.3.1/modules/gfx/src/impl/octree_isocont.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_construct.h:61, from /usr/include/c++/12/bits/alloc_traits.h:33, from /usr/include/c++/12/ext/alloc_traits.h:34, from /usr/include/c++/12/unordered_map:41, from /usr/include/c++/12/functional:61, from /usr/include/boost/container_hash/hash.hpp:20, from /usr/include/boost/functional/hash.hpp:6, from /usr/include/boost/unordered/unordered_map.hpp:18, from /usr/include/boost/unordered_map.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/octree_isocont.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 45%] Linking CXX shared library ../../../stage/lib/libost_gfx.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/test_texture.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/textures/test_texture.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/glyph_texture.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/textures/glyph_texture.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_gfx.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_gfx.so.2.3 -o ../../../stage/lib/libost_gfx.so.2.3.1 CMakeFiles/ost_gfx.dir/bitmap_io.cc.o CMakeFiles/ost_gfx.dir/exporter.cc.o CMakeFiles/ost_gfx.dir/collada_exporter.cc.o CMakeFiles/ost_gfx.dir/color.cc.o CMakeFiles/ost_gfx.dir/primitives.cc.o CMakeFiles/ost_gfx.dir/entity.cc.o CMakeFiles/ost_gfx.dir/symmetry_node.cc.o CMakeFiles/ost_gfx.dir/gfx_node.cc.o CMakeFiles/ost_gfx.dir/gfx_object.cc.o CMakeFiles/ost_gfx.dir/gfx_prim.cc.o CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o CMakeFiles/ost_gfx.dir/input.cc.o CMakeFiles/ost_gfx.dir/prim_list.cc.o CMakeFiles/ost_gfx.dir/scene.cc.o CMakeFiles/ost_gfx.dir/selection.cc.o CMakeFiles/ost_gfx.dir/surface.cc.o CMakeFiles/ost_gfx.dir/gradient.cc.o CMakeFiles/ost_gfx.dir/gradient_manager.cc.o CMakeFiles/ost_gfx.dir/vertex_array.cc.o CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o CMakeFiles/ost_gfx.dir/material.cc.o CMakeFiles/ost_gfx.dir/povray.cc.o CMakeFiles/ost_gfx.dir/gost_exporter.cc.o CMakeFiles/ost_gfx.dir/texture.cc.o CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o CMakeFiles/ost_gfx.dir/map_iso.cc.o CMakeFiles/ost_gfx.dir/map_slab.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_img_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so ../../../stage/lib/libost_db.so.2.3.1 ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so [ 46%] Linking CXX shared module ../../../stage/lib/python3.11/dist-packages/ost/db/_ost_db.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_db.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/db/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/db/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 46%] Built target _ost_db 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 46%] Building CXX object modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -MF CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o.d -o CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/pymod/wrap_seq_alg.cc cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_gfx.so.2.3.1 ../../../stage/lib/libost_gfx.so.2.3 ../../../stage/lib/libost_gfx.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 46%] Built target ost_gfx 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod/CMakeFiles/_ost_conop.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 46%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/wrap_conop.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/wrap_conop.cc.o -MF CMakeFiles/_ost_conop.dir/wrap_conop.cc.o.d -o CMakeFiles/_ost_conop.dir/wrap_conop.cc.o -c /build/openstructure-2.3.1/modules/conop/pymod/wrap_conop.cc [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/save_entity.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/save_entity.cc.o -MF CMakeFiles/ost_io.dir/mol/save_entity.cc.o.d -o CMakeFiles/ost_io.dir/mol/save_entity.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/save_entity.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /build/openstructure-2.3.1/modules/io/src/mol/save_entity.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/io/src/mol/save_entity.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/merge_pairwise_alignments.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/pymod/wrap_seq_alg.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/ins_del.hh:25, from /build/openstructure-2.3.1/modules/seq/alg/pymod/wrap_seq_alg.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/io/src/mol/load_entity.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /build/openstructure-2.3.1/modules/io/src/mol/load_entity.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/surface_io_msms_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib_base.hh:5, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib.hh:27, from /build/openstructure-2.3.1/modules/conop/pymod/export_compound.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface.hh:22, from /build/openstructure-2.3.1/modules/io/src/mol/surface_io_handler.hh:25, from /build/openstructure-2.3.1/modules/io/src/mol/surface_io_msms_handler.hh:22, from /build/openstructure-2.3.1/modules/io/src/mol/surface_io_msms_handler.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /build/openstructure-2.3.1/modules/io/src/mol/surface_io_msms_handler.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/load_surface.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/load_surface.cc.o -MF CMakeFiles/ost_io.dir/mol/load_surface.cc.o.d -o CMakeFiles/ost_io.dir/mol/load_surface.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/load_surface.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/load_surface.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/io/src/mol/load_surface.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /build/openstructure-2.3.1/modules/io/src/mol/load_surface.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 46%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o -MF CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o.d -o CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/chemdict_parser.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib_base.hh:5, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh:30, from /build/openstructure-2.3.1/modules/io/src/mol/chemdict_parser.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chem_class.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 48%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_processor.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_processor.cc.o -MF CMakeFiles/_ost_conop.dir/export_processor.cc.o.d -o CMakeFiles/_ost_conop.dir/export_processor.cc.o -c /build/openstructure-2.3.1/modules/conop/pymod/export_processor.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/io_profile.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/io_profile.cc.o -MF CMakeFiles/ost_io.dir/mol/io_profile.cc.o.d -o CMakeFiles/ost_io.dir/mol/io_profile.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/io_profile.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/modules/io/src/mol/io_profile.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/io_profile.cc:1: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/mol/io_profile.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/dcd_io.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/dcd_io.cc.o -MF CMakeFiles/ost_io.dir/mol/dcd_io.cc.o.d -o CMakeFiles/ost_io.dir/mol/dcd_io.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/dcd_io.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/processor.hh:22, from /build/openstructure-2.3.1/modules/conop/pymod/export_processor.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/io/src/mol/dcd_io.cc:33: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/fstream:38, from /build/openstructure-2.3.1/modules/io/src/mol/dcd_io.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_reader.hh:28, from /build/openstructure-2.3.1/modules/io/src/mol/dcd_io.cc:40: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 48%] Linking CXX shared module ../../../../stage/lib/python3.11/dist-packages/ost/seq/alg/_ost_seq_alg.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../../stage/lib/python3.11/dist-packages/ost/seq/alg/_ost_seq_alg.so CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_seq_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../../stage/lib/libost_seq.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_regex.so ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/seq/alg/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/seq/alg/pymod/mat.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/alg/./mat.pyc\",\"mat.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/seq/alg/pymod/renumber.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/alg/./renumber.pyc\",\"renumber.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/seq/alg/pymod/aaindex.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/seq/alg/./aaindex.pyc\",\"aaindex.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 48%] Built target _ost_seq_alg [ 48%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_heuristic.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_heuristic.cc.o -MF CMakeFiles/_ost_conop.dir/export_heuristic.cc.o.d -o CMakeFiles/_ost_conop.dir/export_heuristic.cc.o -c /build/openstructure-2.3.1/modules/conop/pymod/export_heuristic.cc [ 48%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o -MF CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o.d -o CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o -c /build/openstructure-2.3.1/modules/conop/pymod/export_amino_acids.cc [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/star_parser.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/star_parser.cc.o -MF CMakeFiles/ost_io.dir/mol/star_parser.cc.o.d -o CMakeFiles/ost_io.dir/mol/star_parser.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/star_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/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/heuristic.hh:22, from /build/openstructure-2.3.1/modules/conop/pymod/export_heuristic.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:26, from /build/openstructure-2.3.1/modules/conop/pymod/export_amino_acids.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:61:42: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | 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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/conop/pymod/export_conop.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /build/openstructure-2.3.1/modules/io/src/mol/mmcif_reader.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/profile.hh:22, from /build/openstructure-2.3.1/modules/io/src/mol/mmcif_reader.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 48%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_diag.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_diag.cc.o -MF CMakeFiles/_ost_conop.dir/export_diag.cc.o.d -o CMakeFiles/_ost_conop.dir/export_diag.cc.o -c /build/openstructure-2.3.1/modules/conop/pymod/export_diag.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:25, from /build/openstructure-2.3.1/modules/io/src/mol/mmcif_reader.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 48%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_rule_based.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_rule_based.cc.o -MF CMakeFiles/_ost_conop.dir/export_rule_based.cc.o.d -o CMakeFiles/_ost_conop.dir/export_rule_based.cc.o -c /build/openstructure-2.3.1/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-2.3.1/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 /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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/diag.hh:23, from /build/openstructure-2.3.1/modules/conop/pymod/export_diag.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/rule_based.hh:22, from /build/openstructure-2.3.1/modules/conop/pymod/export_rule_based.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 48%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o -MF CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o.d -o CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o -c /build/openstructure-2.3.1/modules/conop/pymod/export_ring_finder.cc [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_info.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_info.cc.o -MF CMakeFiles/ost_io.dir/mol/mmcif_info.cc.o.d -o CMakeFiles/ost_io.dir/mol/mmcif_info.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/mmcif_info.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_info.hh:25, from /build/openstructure-2.3.1/modules/io/src/mol/mmcif_info.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_exception.hh:22, from /build/openstructure-2.3.1/modules/io/src/mol/mmcif_info.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/ring_finder.hh:27, from /build/openstructure-2.3.1/modules/conop/pymod/export_ring_finder.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 49%] Linking CXX shared module ../../../stage/lib/python3.11/dist-packages/ost/conop/_ost_conop.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_conop.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_conop.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/conop/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/conop/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/conop/pymod/cleanup.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/conop/./cleanup.pyc\",\"cleanup.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 49%] Built target _ost_conop make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 49%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o -MF CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o.d -o CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/wrap_gfx.cc [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_str.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_str.cc.o -MF CMakeFiles/ost_io.dir/mol/pdb_str.cc.o.d -o CMakeFiles/ost_io.dir/mol/pdb_str.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/pdb_str.cc [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o -MF CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o.d -o CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/stereochemical_params_reader.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_str.hh:23, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_str.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_str.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/stereochemical_params_reader.hh:23, from /build/openstructure-2.3.1/modules/io/src/mol/stereochemical_params_reader.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/boost/system/error_code.hpp:17, from /usr/include/boost/filesystem/path_traits.hpp:22, from /usr/include/boost/filesystem/path.hpp:26, from /usr/include/boost/filesystem/fstream.hpp:21, from /build/openstructure-2.3.1/modules/io/src/mol/stereochemical_params_reader.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function 'std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const': /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /build/openstructure-2.3.1/modules/io/src/mol/pdb_str.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/omf.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/omf.cc.o -MF CMakeFiles/ost_io.dir/mol/omf.cc.o.d -o CMakeFiles/ost_io.dir/mol/omf.cc.o -c /build/openstructure-2.3.1/modules/io/src/mol/omf.cc [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/seq/clustal_io_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /build/openstructure-2.3.1/modules/gfx/pymod/wrap_gfx.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/modules/io/src/mol/omf.cc:2: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/atom_handle.hh:22, from /build/openstructure-2.3.1/modules/io/src/mol/omf.cc:1: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mmcif_info.hh:25, from /build/openstructure-2.3.1/modules/io/src/mol/omf.hh:29, from /build/openstructure-2.3.1/modules/io/src/mol/omf.cc:6: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/modules/io/src/seq/clustal_io_handler.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /build/openstructure-2.3.1/modules/io/src/seq/clustal_io_handler.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/io/src/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/modules/io/src/seq/clustal_io_handler.hh:25, from /build/openstructure-2.3.1/modules/io/src/seq/clustal_io_handler.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 49%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene.cc.o -MF CMakeFiles/_ost_gfx.dir/export_scene.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_scene.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_scene.cc [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/load.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/load.cc.o -MF CMakeFiles/ost_io.dir/seq/load.cc.o.d -o CMakeFiles/ost_io.dir/seq/load.cc.o -c /build/openstructure-2.3.1/modules/io/src/seq/load.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/io/src/seq/load.hh:27, from /build/openstructure-2.3.1/modules/io/src/seq/load.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/module_config.hh:22, from /build/openstructure-2.3.1/modules/io/src/seq/load.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/modules/gfx/pymod/export_scene.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/save.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/save.cc.o -MF CMakeFiles/ost_io.dir/seq/save.cc.o.d -o CMakeFiles/ost_io.dir/seq/save.cc.o -c /build/openstructure-2.3.1/modules/io/src/seq/save.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /build/openstructure-2.3.1/modules/io/src/seq/save.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/io/src/seq/save.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/seq/fasta_io_handler.cc [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/seq/pir_io_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/io/src/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/modules/io/src/seq/fasta_io_handler.hh:25, from /build/openstructure-2.3.1/modules/io/src/seq/fasta_io_handler.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/module_config.hh:22, from /build/openstructure-2.3.1/modules/io/src/seq/fasta_io_handler.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/io/src/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/modules/io/src/seq/pir_io_handler.hh:25, from /build/openstructure-2.3.1/modules/io/src/seq/pir_io_handler.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/module_config.hh:22, from /build/openstructure-2.3.1/modules/io/src/seq/pir_io_handler.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 49%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o -MF CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_gfx_node.cc [ 49%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/promod_io_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/promod_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/promod_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/promod_io_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/seq/promod_io_handler.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/hhm_io_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/hhm_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/hhm_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/hhm_io_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/seq/hhm_io_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/modules/io/src/seq/promod_io_handler.hh:26, from /build/openstructure-2.3.1/modules/io/src/seq/promod_io_handler.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/seq/pssm_io_handler.cc [ 51%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o -MF CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_symmetry_node.cc [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/load_map.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/load_map.cc.o -MF CMakeFiles/ost_io.dir/img/load_map.cc.o.d -o CMakeFiles/ost_io.dir/img/load_map.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/load_map.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /build/openstructure-2.3.1/modules/io/src/img/load_map.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/io/src/img/load_map.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /build/openstructure-2.3.1/modules/io/src/img/load_map.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/symmetry_node.hh:22, from /build/openstructure-2.3.1/modules/gfx/pymod/export_symmetry_node.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_dx_handler.cc [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_spi_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /build/openstructure-2.3.1/modules/io/src/img/map_io_dx_handler.cc:37: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /build/openstructure-2.3.1/modules/io/src/img/map_io_dx_handler.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /build/openstructure-2.3.1/modules/io/src/img/map_io_spi_handler.cc:35: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/fstream:38, from /build/openstructure-2.3.1/modules/io/src/img/map_io_spi_handler.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o -MF CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_gfx_obj.cc [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_situs_handler.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/modules/gfx/pymod/export_gfx_obj.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:64: /usr/include/c++/12/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float]': /build/openstructure-2.3.1/modules/gfx/pymod/color_by_def.hh:124:49: required from here /usr/include/c++/12/bits/stl_pair.h:741:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 741 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_mrc_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /build/openstructure-2.3.1/modules/io/src/img/map_io_situs_handler.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/iomanip:40, from /build/openstructure-2.3.1/modules/io/src/img/map_io_situs_handler.cc:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/io/src/img/map_io_mrc_handler.cc:76: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/img/map_io_mrc_handler.cc:58: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_dm3_handler.cc [ 51%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_entity.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_entity.cc.o -MF CMakeFiles/_ost_gfx.dir/export_entity.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_entity.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_entity.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/io/src/img/map_io_dm3_handler.cc:37: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/img/map_io_dm3_handler.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/modules/gfx/pymod/export_entity.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:64: /usr/include/c++/12/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float]': /build/openstructure-2.3.1/modules/gfx/pymod/color_by_def.hh:124:49: required from here /usr/include/c++/12/bits/stl_pair.h:741:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 741 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from /build/openstructure-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:43: /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:51:40: warning: 'int32' is deprecated [-Wdeprecated-declarations] 51 | class complexint32:public std::complex{ | ^~~~~ In file included from /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:24: /usr/include/arm-linux-gnueabihf/tiff.h:85:37: note: declared here 85 | typedef TIFF_MSC_DEPRECATED int32_t int32 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:61:40: warning: 'int16' is deprecated [-Wdeprecated-declarations] 61 | class complexint16:public std::complex{ | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:82:37: note: declared here 82 | typedef TIFF_MSC_DEPRECATED int16_t int16 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:71:39: warning: 'int8' is deprecated [-Wdeprecated-declarations] 71 | class complexint8:public std::complex{ | ^~~~ /usr/include/arm-linux-gnueabihf/tiff.h:79:36: note: declared here 79 | typedef TIFF_MSC_DEPRECATED int8_t int8 TIFF_GCC_DEPRECATED; | ^~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:105:114: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 105 | void do_tiff_read(tdata_t buf,unsigned int rps, unsigned int width, IST* is,unsigned int& current_row, uint16 spp) | ^ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc: In member function 'virtual void ost::io::MapIOTiffHandler::do_export(const ost::img::MapHandle&, TIFF*, ost::io::TIF&) const': /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:310:10: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 310 | uint16 spp=1; | ^~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:311:10: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 311 | uint16 fmt =0; | ^~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:312:10: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 312 | uint16 bpp =0 ; | ^~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:338:40: warning: 'int8' is deprecated [-Wdeprecated-declarations] 338 | fsr=detail::do_tiff_write; | ^~~~ /usr/include/arm-linux-gnueabihf/tiff.h:79:36: note: declared here 79 | typedef TIFF_MSC_DEPRECATED int8_t int8 TIFF_GCC_DEPRECATED; | ^~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:343:40: warning: 'int16' is deprecated [-Wdeprecated-declarations] 343 | fsr=detail::do_tiff_write; | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:82:37: note: declared here 82 | typedef TIFF_MSC_DEPRECATED int16_t int16 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:348:40: warning: 'int32' is deprecated [-Wdeprecated-declarations] 348 | fsr=detail::do_tiff_write; | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:85:37: note: declared here 85 | typedef TIFF_MSC_DEPRECATED int32_t int32 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:363:40: warning: 'int16' is deprecated [-Wdeprecated-declarations] 363 | fsr=detail::do_tiff_write; | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:82:37: note: declared here 82 | typedef TIFF_MSC_DEPRECATED int16_t int16 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:371:40: warning: 'uint8' is deprecated [-Wdeprecated-declarations] 371 | fsr=detail::do_tiff_write; | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:80:37: note: declared here 80 | typedef TIFF_MSC_DEPRECATED uint8_t uint8 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:376:40: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 376 | fsr=detail::do_tiff_write; | ^~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:381:40: warning: 'uint32' is deprecated [-Wdeprecated-declarations] 381 | fsr=detail::do_tiff_write; | ^~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:86:38: note: declared here 86 | typedef TIFF_MSC_DEPRECATED uint32_t uint32 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:396:40: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 396 | fsr=detail::do_tiff_write; | ^~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:406:54: warning: 'int8' is deprecated [-Wdeprecated-declarations] 406 | fsc=detail::do_tiff_write,img::image_state::ComplexSpatialImageState>; | ^~~~ /usr/include/arm-linux-gnueabihf/tiff.h:79:36: note: declared here 79 | typedef TIFF_MSC_DEPRECATED int8_t int8 TIFF_GCC_DEPRECATED; | ^~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:411:54: warning: 'int16' is deprecated [-Wdeprecated-declarations] 411 | fsc=detail::do_tiff_write,img::image_state::ComplexSpatialImageState>; | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:82:37: note: declared here 82 | typedef TIFF_MSC_DEPRECATED int16_t int16 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:416:54: warning: 'int32' is deprecated [-Wdeprecated-declarations] 416 | fsc=detail::do_tiff_write,img::image_state::ComplexSpatialImageState>; | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:85:37: note: declared here 85 | typedef TIFF_MSC_DEPRECATED int32_t int32 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc: In member function 'void ost::io::MapIOTiffHandler::load_image_data(TIFF*, ost::img::ImageHandle&, const ost::io::TIF&)': /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:556:10: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 556 | uint16 bpp,spp,plc,ori,reso=RESUNIT_NONE,fmt=SAMPLEFORMAT_UINT; | ^~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:556:14: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 556 | uint16 bpp,spp,plc,ori,reso=RESUNIT_NONE,fmt=SAMPLEFORMAT_UINT; | ^~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:556:18: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 556 | uint16 bpp,spp,plc,ori,reso=RESUNIT_NONE,fmt=SAMPLEFORMAT_UINT; | ^~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:556:22: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 556 | uint16 bpp,spp,plc,ori,reso=RESUNIT_NONE,fmt=SAMPLEFORMAT_UINT; | ^~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:556:26: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 556 | uint16 bpp,spp,plc,ori,reso=RESUNIT_NONE,fmt=SAMPLEFORMAT_UINT; | ^~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:556:44: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 556 | uint16 bpp,spp,plc,ori,reso=RESUNIT_NONE,fmt=SAMPLEFORMAT_UINT; | ^~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:653:30: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 653 | detail::do_tiff_read(buf,rowcount,width,is,current_row,spp); | ^~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:656:30: warning: 'uint32' is deprecated [-Wdeprecated-declarations] 656 | detail::do_tiff_read(buf,rowcount,width,is,current_row,spp); | ^~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:86:38: note: declared here 86 | typedef TIFF_MSC_DEPRECATED uint32_t uint32 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:662:12: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 662 | uint16 photometric; | ^~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:665:17: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 665 | uint16* lookuptable_red; | ^~~~~~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:666:17: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 666 | uint16* lookuptable_green; | ^~~~~~~~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:667:17: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 667 | uint16* lookuptable_blue; | ^~~~~~~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:706:32: warning: 'int8' is deprecated [-Wdeprecated-declarations] 706 | detail::do_tiff_read(buf,rowcount,width,isr,current_row,spp); | ^~~~ /usr/include/arm-linux-gnueabihf/tiff.h:79:36: note: declared here 79 | typedef TIFF_MSC_DEPRECATED int8_t int8 TIFF_GCC_DEPRECATED; | ^~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:708:32: warning: 'uint8' is deprecated [-Wdeprecated-declarations] 708 | detail::do_tiff_read(buf,rowcount,width,isr,current_row,spp); | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:80:37: note: declared here 80 | typedef TIFF_MSC_DEPRECATED uint8_t uint8 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:717:32: warning: 'int16' is deprecated [-Wdeprecated-declarations] 717 | detail::do_tiff_read(buf,rowcount,width,isr,current_row,spp); | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:82:37: note: declared here 82 | typedef TIFF_MSC_DEPRECATED int16_t int16 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:719:32: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 719 | detail::do_tiff_read(buf,rowcount,width,isr,current_row,spp); | ^~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:730:32: warning: 'int32' is deprecated [-Wdeprecated-declarations] 730 | detail::do_tiff_read(buf,rowcount,width,isr,current_row,spp); | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:85:37: note: declared here 85 | typedef TIFF_MSC_DEPRECATED int32_t int32 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:732:32: warning: 'uint32' is deprecated [-Wdeprecated-declarations] 732 | detail::do_tiff_read(buf,rowcount,width,isr,current_row,spp); | ^~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:86:38: note: declared here 86 | typedef TIFF_MSC_DEPRECATED uint32_t uint32 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:771:12: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 771 | uint16 photometric; | ^~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:774:17: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 774 | uint16* lookuptable_red; | ^~~~~~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:775:17: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 775 | uint16* lookuptable_green; | ^~~~~~~~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.cc:776:17: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 776 | uint16* lookuptable_blue; | ^~~~~~~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_dat_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/io/src/img/map_io_dat_handler.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/shared_array.hpp:19, from /usr/include/boost/shared_array.hpp:17, from /build/openstructure-2.3.1/modules/io/src/img/map_io_dat_handler.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_ipl_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/io/src/img/map_io_ipl_handler.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/iomanip:40, from /build/openstructure-2.3.1/modules/io/src/img/map_io_ipl_handler.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc [ 53%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_nanoscope_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/alg_transform.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/transform.hh:24, from /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:29: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global 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 /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc:38: /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:51:40: warning: 'int32' is deprecated [-Wdeprecated-declarations] 51 | class complexint32:public std::complex{ | ^~~~~ In file included from /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:24: /usr/include/arm-linux-gnueabihf/tiff.h:85:37: note: declared here 85 | typedef TIFF_MSC_DEPRECATED int32_t int32 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:61:40: warning: 'int16' is deprecated [-Wdeprecated-declarations] 61 | class complexint16:public std::complex{ | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:82:37: note: declared here 82 | typedef TIFF_MSC_DEPRECATED int16_t int16 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:71:39: warning: 'int8' is deprecated [-Wdeprecated-declarations] 71 | class complexint8:public std::complex{ | ^~~~ /usr/include/arm-linux-gnueabihf/tiff.h:79:36: note: declared here 79 | typedef TIFF_MSC_DEPRECATED int8_t int8 TIFF_GCC_DEPRECATED; | ^~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:105:114: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 105 | void do_tiff_read(tdata_t buf,unsigned int rps, unsigned int width, IST* is,unsigned int& current_row, uint16 spp) | ^ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc: In member function 'virtual void ost::io::MapIOJpkHandler::Import(ost::img::ImageHandle&, const boost::filesystem::path&, const ost::io::ImageFormatBase&)': /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc:128:11: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 128 | uint16* reflect; | ^~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc:129:11: warning: 'uint32' is deprecated [-Wdeprecated-declarations] 129 | uint32* dummy; | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:86:38: note: declared here 86 | typedef TIFF_MSC_DEPRECATED uint32_t uint32 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc: In member function 'virtual void ost::io::MapIOJpkHandler::Import(ost::img::MapHandle&, std::istream&, const ost::io::ImageFormatBase&)': /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc:223:11: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 223 | uint16* reflect; | ^~~~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.cc:224:11: warning: 'uint32' is deprecated [-Wdeprecated-declarations] 224 | uint32* dummy; | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:86:38: note: declared here 86 | typedef TIFF_MSC_DEPRECATED uint32_t uint32 TIFF_GCC_DEPRECATED; | ^~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /build/openstructure-2.3.1/modules/io/src/img/map_io_nanoscope_handler.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/fstream:38, from /build/openstructure-2.3.1/modules/io/src/img/map_io_nanoscope_handler.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_surface.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_surface.cc.o -MF CMakeFiles/_ost_gfx.dir/export_surface.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_surface.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_surface.cc [ 53%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_png_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /build/openstructure-2.3.1/modules/io/src/img/map_io_png_handler.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/io/src/img/map_io_png_handler.cc:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/map_io_df3_handler.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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/surface.hh:31, from /build/openstructure-2.3.1/modules/gfx/pymod/export_surface.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:64: /usr/include/c++/12/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float]': /build/openstructure-2.3.1/modules/gfx/pymod/color_by_def.hh:124:49: required from here /usr/include/c++/12/bits/stl_pair.h:741:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 741 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /build/openstructure-2.3.1/modules/io/src/img/map_io_df3_handler.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/iomanip:40, from /build/openstructure-2.3.1/modules/io/src/img/map_io_df3_handler.cc:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/image_format.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/image_format.cc.o -MF CMakeFiles/ost_io.dir/img/image_format.cc.o.d -o CMakeFiles/ost_io.dir/img/image_format.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/image_format.cc [ 53%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/tiff_util.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/tiff_util.cc.o -MF CMakeFiles/ost_io.dir/img/tiff_util.cc.o.d -o CMakeFiles/ost_io.dir/img/tiff_util.cc.o -c /build/openstructure-2.3.1/modules/io/src/img/tiff_util.cc [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primitives.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primitives.cc.o -MF CMakeFiles/_ost_gfx.dir/export_primitives.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_primitives.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_primitives.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:27, from /build/openstructure-2.3.1/modules/io/src/img/tiff_util.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/complex:44, from /build/openstructure-2.3.1/modules/io/src/img/tiff_util.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:51:40: warning: 'int32' is deprecated [-Wdeprecated-declarations] 51 | class complexint32:public std::complex{ | ^~~~~ In file included from /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:24: /usr/include/arm-linux-gnueabihf/tiff.h:85:37: note: declared here 85 | typedef TIFF_MSC_DEPRECATED int32_t int32 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:61:40: warning: 'int16' is deprecated [-Wdeprecated-declarations] 61 | class complexint16:public std::complex{ | ^~~~~ /usr/include/arm-linux-gnueabihf/tiff.h:82:37: note: declared here 82 | typedef TIFF_MSC_DEPRECATED int16_t int16 TIFF_GCC_DEPRECATED; | ^~~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:71:39: warning: 'int8' is deprecated [-Wdeprecated-declarations] 71 | class complexint8:public std::complex{ | ^~~~ /usr/include/arm-linux-gnueabihf/tiff.h:79:36: note: declared here 79 | typedef TIFF_MSC_DEPRECATED int8_t int8 TIFF_GCC_DEPRECATED; | ^~~~ /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh:105:114: warning: 'uint16' is deprecated [-Wdeprecated-declarations] 105 | void do_tiff_read(tdata_t buf,unsigned int rps, unsigned int width, IST* is,unsigned int& current_row, uint16 spp) | ^ /usr/include/arm-linux-gnueabihf/tiff.h:83:38: note: declared here 83 | typedef TIFF_MSC_DEPRECATED uint16_t uint16 TIFF_GCC_DEPRECATED; | ^~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primlist.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primlist.cc.o -MF CMakeFiles/_ost_gfx.dir/export_primlist.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_primlist.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_primlist.cc [ 53%] Linking CXX shared library ../../../stage/lib/libost_io.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_io.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -Wl,-soname,libost_io.so.2.3 -o ../../../stage/lib/libost_io.so.2.3.1 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/mol/omf.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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../stage/lib/libost_img_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../stage/lib/libost_seq.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_io.so.2.3.1 ../../../stage/lib/libost_io.so.2.3 ../../../stage/lib/libost_io.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 53%] 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[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 53%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o -MF CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/wrap_mol_alg.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/primitives.hh:22, from /build/openstructure-2.3.1/modules/gfx/pymod/export_primitives.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o -MF CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_scene_observer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/prim_list.hh:28, from /build/openstructure-2.3.1/modules/gfx/pymod/export_primlist.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:23, from /build/openstructure-2.3.1/modules/mol/alg/pymod/wrap_mol_alg.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function 'std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const': /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_render_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_render_options.cc.o -MF CMakeFiles/_ost_gfx.dir/export_render_options.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_render_options.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_render_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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color.cc.o -MF CMakeFiles/_ost_gfx.dir/export_color.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_color.cc.o -c /build/openstructure-2.3.1/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-2.3.1/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/modules/gfx/pymod/export_color.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gradient.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gradient.cc.o -MF CMakeFiles/_ost_gfx.dir/export_gradient.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_gradient.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_gradient.cc [ 54%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o -MF CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o -c /build/openstructure-2.3.1/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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gradient.hh:28, from /build/openstructure-2.3.1/modules/gfx/pymod/export_gradient.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh:24, from /build/openstructure-2.3.1/modules/gfx/pymod/export_color_ops.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 54%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o -MF CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o -c /build/openstructure-2.3.1/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 54%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_exporter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_exporter.cc.o -MF CMakeFiles/_ost_gfx.dir/export_exporter.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_exporter.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_exporter.cc [ 54%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_svd_superpose.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 54%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o -MF CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o -c /build/openstructure-2.3.1/modules/gfx/pymod/export_bitmap.cc [ 54%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_map.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_map.cc.o -MF CMakeFiles/_ost_gfx.dir/export_map.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_map.cc.o -c /build/openstructure-2.3.1/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-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ /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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/svd_superpose.hh:27, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_svd_superpose.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ make -f modules/io/tests/CMakeFiles/test_mae_standalone.dir/build.make modules/io/tests/CMakeFiles/test_mae_standalone.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/test_mae_standalone.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/io/tests/CMakeFiles/test_mae_standalone.dir/build.make modules/io/tests/CMakeFiles/test_mae_standalone.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 54%] Building CXX object modules/io/tests/CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o -MF CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o.d -o CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_mae_standalone.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/map_iso.hh:28, from /build/openstructure-2.3.1/modules/gfx/pymod/export_map.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 55%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_clash.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /build/openstructure-2.3.1/modules/io/tests/test_mae_standalone.cc:2: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/io/tests/test_mae_standalone.cc:1: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 55%] Linking CXX executable ../../../stage/bin/test_mae_standalone cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mae_standalone.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o -o ../../../stage/bin/test_mae_standalone -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib ../../../stage/lib/libost_io.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_regex.so ../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_img_alg.so.2.3.1 ../../../stage/lib/libost_img.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 55%] Built target test_mae_standalone make -f modules/mol/alg/src/CMakeFiles/lddt.dir/build.make modules/mol/alg/src/CMakeFiles/lddt.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/lddt.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/mol/alg/src/CMakeFiles/lddt.dir/build.make modules/mol/alg/src/CMakeFiles/lddt.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 55%] Building CXX object modules/mol/alg/src/CMakeFiles/lddt.dir/lddt.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/lddt.dir/lddt.cc.o -MF CMakeFiles/lddt.dir/lddt.cc.o.d -o CMakeFiles/lddt.dir/lddt.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/src/lddt.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-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 55%] Linking CXX shared module ../../../stage/lib/python3.11/dist-packages/ost/gfx/_ost_gfx.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/pymod/gradients.xml /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/gradients.xml cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_gfx.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_gfx.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../stage/lib/libost_img_alg.so.2.3.1 ../../../stage/lib/libost_img.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/clash_score.hh:26, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_clash.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/modules/mol/alg/src/lddt.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/iomanip:40, from /build/openstructure-2.3.1/modules/mol/alg/src/lddt.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:24, from /build/openstructure-2.3.1/modules/mol/alg/src/lddt.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function 'std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const': /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gfx/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gfx/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gfx/pymod/py_gfx_obj.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gfx/./py_gfx_obj.pyc\",\"py_gfx_obj.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 55%] Built target _ost_gfx make -f tools/molck/CMakeFiles/molck.dir/build.make tools/molck/CMakeFiles/molck.dir/depend [ 55%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_trajectory_analysis.cc make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/tools/molck /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tools/molck /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tools/molck/CMakeFiles/molck.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f tools/molck/CMakeFiles/molck.dir/build.make tools/molck/CMakeFiles/molck.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 55%] Building CXX object tools/molck/CMakeFiles/molck.dir/main.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tools/molck && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT tools/molck/CMakeFiles/molck.dir/main.cc.o -MF CMakeFiles/molck.dir/main.cc.o.d -o CMakeFiles/molck.dir/main.cc.o -c /build/openstructure-2.3.1/tools/molck/main.cc In file included from /build/openstructure-2.3.1/modules/mol/alg/src/lddt.cc:39: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh: At global scope: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:61:42: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/program_options/errors.hpp:12, from /usr/include/boost/program_options/options_description.hpp:12, from /usr/include/boost/program_options.hpp:15, from /build/openstructure-2.3.1/tools/molck/main.cc:2: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /build/openstructure-2.3.1/tools/molck/main.cc:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/trajectory_analysis.hh:29, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_trajectory_analysis.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 55%] Linking CXX executable ../../../../stage/bin/lddt cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/lddt.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro CMakeFiles/lddt.dir/lddt.cc.o -o ../../../../stage/bin/lddt -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_io.so.2.3.1 ../../../../stage/lib/libost_mol_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../../stage/lib/libost_img_alg.so.2.3.1 ../../../../stage/lib/libost_img.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_conop.so.2.3.1 ../../../../stage/lib/libost_db.so.2.3.1 ../../../../stage/lib/libost_seq.so.2.3.1 ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 55%] Built target lddt make -f modules/conop/src/CMakeFiles/chemdict_tool.dir/build.make modules/conop/src/CMakeFiles/chemdict_tool.dir/depend make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/chemdict_tool.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 55%] Building CXX object modules/conop/src/CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/src/CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o -MF CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o.d -o CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o -c /build/openstructure-2.3.1/modules/conop/src/chemdict_tool.cc [ 55%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_structure_analysis.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib_base.hh:5, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh:30, from /build/openstructure-2.3.1/modules/conop/src/chemdict_tool.cc:32: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/conop/src/chemdict_tool.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 55%] Linking CXX executable ../../stage/bin/molck cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tools/molck && /usr/bin/cmake -E cmake_link_script CMakeFiles/molck.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro CMakeFiles/molck.dir/main.cc.o -o ../../stage/bin/molck -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../stage/lib/libost_io.so.2.3.1 ../../stage/lib/libost_mol_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../stage/lib/libost_seq_alg.so.2.3.1 ../../stage/lib/libost_conop.so.2.3.1 ../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../stage/lib/libost_seq.so.2.3.1 ../../stage/lib/libost_mol.so.2.3.1 ../../stage/lib/libost_img_alg.so.2.3.1 ../../stage/lib/libost_img.so.2.3.1 ../../stage/lib/libost_info.so.2.3.1 ../../stage/lib/libost_base.so.2.3.1 ../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 55%] Built target molck 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-2.3.1/obj-arm-linux-gnueabihf' [ 56%] Generating tools/moc_tool_options_win.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options_win.cpp_parameters [ 56%] Generating data_viewer/moc_argand.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_argand.cpp_parameters [ 56%] Generating data_viewer/moc_data_viewer.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer.cpp_parameters [ 56%] Generating data_viewer/moc_data_viewer_panel_base.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp_parameters [ 56%] Generating data_viewer/moc_fft_panel.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_fft_panel.cpp_parameters [ 56%] Generating data_viewer/moc_info_panel.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_info_panel.cpp_parameters [ 56%] Generating data_viewer/moc_null_overlay.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_null_overlay.cpp_parameters [ 56%] Generating data_viewer/moc_overlay_base.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_overlay_base.cpp_parameters [ 56%] Generating data_viewer/moc_overlay_manager_gui.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_overlay_manager_gui.cpp_parameters [ 56%] Generating data_viewer/moc_pointlist_overlay_base.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp_parameters [ 56%] Generating messages/moc_log_reader.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/messages && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_log_reader.cpp_parameters [ 56%] Generating messages/moc_message_box_widget.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/messages && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_message_box_widget.cpp_parameters [ 56%] Generating messages/moc_message_widget.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/messages && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_message_widget.cpp_parameters [ 56%] Generating moc_dock_widget.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_dock_widget.cpp_parameters [ 56%] Generating moc_file_browser.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_browser.cpp_parameters [ 56%] Generating moc_file_type_dialog.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_type_dialog.cpp_parameters [ 56%] Generating moc_file_viewer.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_viewer.cpp_parameters [ 56%] Generating moc_gl_canvas.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_gl_canvas.cpp_parameters [ 56%] Generating moc_gl_win.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_gl_win.cpp_parameters [ 56%] Generating moc_gosty_app.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_gosty_app.cpp_parameters [ 56%] Generating moc_main.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_main.cpp_parameters [ 56%] Generating moc_main_area.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_main_area.cpp_parameters [ 56%] Generating moc_main_window.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_main_window.cpp_parameters [ 56%] Generating moc_perspective.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_perspective.cpp_parameters [ 58%] Generating moc_scene_menu.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_menu.cpp_parameters [ 58%] Generating moc_scene_selection.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_selection.cpp_parameters [ 58%] Generating moc_widget.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget.cpp_parameters [ 58%] Generating moc_widget_geom_handler.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget_geom_handler.cpp_parameters [ 59%] Generating moc_widget_pool.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget_pool.cpp_parameters In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ [ 59%] Generating panels/moc_bottom_bar.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_bottom_bar.cpp_parameters /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 59%] Generating panels/moc_button_bar.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_button_bar.cpp_parameters [ 59%] Generating panels/moc_button_box.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_button_box.cpp_parameters [ 59%] Generating panels/moc_drop_box.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_drop_box.cpp_parameters [ 59%] Generating panels/moc_event_button.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_event_button.cpp_parameters [ 60%] Generating panels/moc_panel_bar.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_bar.cpp_parameters [ 60%] Generating panels/moc_panel_bar_widget_holder.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_bar_widget_holder.cpp_parameters [ 60%] Generating panels/moc_panel_manager.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_manager.cpp_parameters [ 60%] Generating panels/moc_panel_widget_container.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_widget_container.cpp_parameters [ 60%] Generating panels/moc_side_bar.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_side_bar.cpp_parameters [ 60%] Generating panels/moc_splitter_panel_bar.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_splitter_panel_bar.cpp_parameters [ 60%] Generating panels/moc_tabbed_panel_bar.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_tabbed_panel_bar.cpp_parameters [ 60%] Generating python_shell/moc_completer_base.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_completer_base.cpp_parameters [ 60%] Generating python_shell/moc_gutter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_gutter.cpp_parameters [ 60%] Generating python_shell/moc_main_thread_runner.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_main_thread_runner.cpp_parameters [ 60%] Generating python_shell/moc_output_redirector.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_output_redirector.cpp_parameters [ 60%] Generating python_shell/moc_path_completer.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_path_completer.cpp_parameters [ 60%] Generating python_shell/moc_python_completer.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_completer.cpp_parameters [ 60%] Generating python_shell/moc_python_interpreter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_interpreter.cpp_parameters [ 62%] Generating python_shell/moc_python_interpreter_worker.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_interpreter_worker.cpp_parameters [ 62%] Generating python_shell/moc_python_namespace_tree_model.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_namespace_tree_model.cpp_parameters [ 62%] Generating python_shell/moc_python_shell.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_shell.cpp_parameters [ 62%] Generating python_shell/moc_python_shell_widget.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_shell_widget.cpp_parameters [ 62%] Generating python_shell/moc_state.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_state.cpp_parameters [ 62%] Generating python_shell/moc_state_machine.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_state_machine.cpp_parameters [ 62%] Generating python_shell/moc_text_logger.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_text_logger.cpp_parameters [ 62%] Generating python_shell/moc_transition.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_transition.cpp_parameters [ 62%] Generating python_shell/moc_transition_guard.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_transition_guard.cpp_parameters [ 63%] Generating scene_win/moc_context_menu.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_context_menu.cpp_parameters In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/structure_analysis.hh:28, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_structure_analysis.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 63%] Linking CXX executable ../../../stage/bin/chemdict_tool cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemdict_tool.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o -o ../../../stage/bin/chemdict_tool -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_io.so.2.3.1 ../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_img_alg.so.2.3.1 ../../../stage/lib/libost_img.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 63%] Built target chemdict_tool [ 63%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_contact_overlap.cc [ 63%] Generating scene_win/moc_current_selection_node.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_current_selection_node.cpp_parameters [ 63%] Generating scene_win/moc_custom_part_node.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_custom_part_node.cpp_parameters [ 63%] Generating scene_win/moc_entity_node.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_node.cpp_parameters [ 63%] Generating scene_win/moc_entity_part_node.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_part_node.cpp_parameters [ 63%] Generating scene_win/moc_gfx_scene_node.cpp [ 63%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_gfx_scene_node.cpp_parameters cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_accessibility.cc [ 63%] Generating scene_win/moc_label_node.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_label_node.cpp_parameters [ 63%] Generating scene_win/moc_render_mode_node.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_mode_node.cpp_parameters [ 63%] Generating scene_win/moc_render_modes_node.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_modes_node.cpp_parameters [ 63%] Generating scene_win/moc_root_node.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_root_node.cpp_parameters [ 64%] Generating scene_win/moc_scene_node.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_node.cpp_parameters [ 64%] Generating scene_win/moc_scene_win.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win.cpp_parameters [ 64%] Generating scene_win/moc_scene_win_model.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win_model.cpp_parameters [ 64%] Generating sequence_viewer/moc_align_properties_painter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp_parameters In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Generating sequence_viewer/moc_alignment_view_object.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_alignment_view_object.cpp_parameters [ 65%] Generating sequence_viewer/moc_background_painter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_background_painter.cpp_parameters In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/contact_overlap.hh:6, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_contact_overlap.cc:4: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/contact_overlap.hh:8: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 65%] Generating sequence_viewer/moc_base_row.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_row.cpp_parameters In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/mol/alg/pymod/export_accessibility.cc:21: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Generating sequence_viewer/moc_base_view_object.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_view_object.cpp_parameters [ 65%] Generating sequence_viewer/moc_conservation_painter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp_parameters In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/accessibility.hh:23, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_accessibility.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 65%] Generating sequence_viewer/moc_painter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_painter.cpp_parameters [ 65%] Generating sequence_viewer/moc_secstr_row.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_secstr_row.cpp_parameters [ 65%] Generating sequence_viewer/moc_seq_secstr_painter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp_parameters [ 67%] Generating sequence_viewer/moc_seq_selection_painter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp_parameters [ 67%] Generating sequence_viewer/moc_seq_text_painter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_delegate.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_model.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_model.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_row.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_row.cpp_parameters [ 67%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_sec_structure.cc [ 67%] Generating sequence_viewer/moc_sequence_search_bar.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_table_view.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_table_view.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_view_object.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_viewer.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_viewer.cpp_parameters [ 67%] Generating sequence_viewer/moc_tick_painter.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_tick_painter.cpp_parameters [ 67%] Generating sequence_viewer/moc_title_row.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_title_row.cpp_parameters [ 67%] Generating tools/moc_measure_tool.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_measure_tool.cpp_parameters [ 67%] Generating tools/moc_tool.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool.cpp_parameters [ 67%] Generating tools/moc_tool_bar.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_bar.cpp_parameters [ 67%] Generating tools/moc_tool_manager.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_manager.cpp_parameters [ 67%] Generating tools/moc_tool_option.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_option.cpp_parameters [ 67%] Generating tools/moc_tool_option_group.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_option_group.cpp_parameters [ 67%] Generating tools/moc_tool_options.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options.cpp_parameters [ 67%] Generating tools/moc_tool_options_widget.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options_widget.cpp_parameters cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/ost_gui.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 68%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o -MF CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_browser.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:25, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_sec_structure.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/file_browser.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_browser.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_browser.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 68%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o -MF CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_type_dialog.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/file_type_dialog.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_type_dialog.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_type_dialog.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 68%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_non_standard.cc [ 68%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_molck.cc [ 68%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o -MF CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_viewer.cpp [ 68%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o -MF CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_gl_canvas.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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_non_standard.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/gl_canvas.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_gl_canvas.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/molck.hh:23, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_molck.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_molck.cc:19: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 68%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_membrane.cc [ 68%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o -MF CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_gl_win.cpp [ 68%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o -MF CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 68%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/pymod/export_entity_to_density.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/find_membrane.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_membrane.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 68%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o -MF CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_gosty_app.cpp [ 68%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_main.cpp.o -MF CMakeFiles/ost_gui.dir/moc_main.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_main.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_main.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/entity_to_density.hh:4, from /build/openstructure-2.3.1/modules/mol/alg/pymod/export_entity_to_density.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/gosty_app.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 69%] Linking CXX shared module ../../../../stage/lib/python3.11/dist-packages/ost/mol/alg/_ost_mol_alg.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_mol_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../../stage/lib/libost_img_alg.so.2.3.1 ../../../../stage/lib/libost_img.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../../stage/lib/libost_conop.so.2.3.1 ../../../../stage/lib/libost_db.so.2.3.1 ../../../../stage/lib/libost_seq.so.2.3.1 ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libsqlite3.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/mol/alg/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/mol/alg/pymod/views.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./views.pyc\",\"views.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/mol/alg/pymod/superpose.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./superpose.pyc\",\"superpose.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/mol/alg/pymod/qsscoring.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./qsscoring.pyc\",\"qsscoring.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/mol/alg/pymod/trajectory_analysis.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./trajectory_analysis.pyc\",\"trajectory_analysis.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/mol/alg/pymod/structure_analysis.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./structure_analysis.pyc\",\"structure_analysis.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/mol/alg/pymod/helix_kinks.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./helix_kinks.pyc\",\"helix_kinks.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/mol/alg/pymod/hbond.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/mol/alg/./hbond.pyc\",\"hbond.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 69%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod/CMakeFiles/_ost_io.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 69%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/wrap_io.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/wrap_io.cc.o -MF CMakeFiles/_ost_io.dir/wrap_io.cc.o.d -o CMakeFiles/_ost_io.dir/wrap_io.cc.o -c /build/openstructure-2.3.1/modules/io/pymod/wrap_io.cc [ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_area.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_area.cpp.o -MF CMakeFiles/ost_gui.dir/moc_main_area.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_main_area.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_main_area.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/main.hh:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/widget_state_saver.hh: In instantiation of 'ost::gui::WidgetStateSaver::~WidgetStateSaver() [with BASE = QMainWindow]': /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/main.hh:40:25: required from here /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/widget_state_saver.hh:323:8: warning: the address of 'ost::gui::WidgetStateSaver::' will never be NULL [-Waddress] 323 | if(dynamic_cast(this)){ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/widget_state_saver.hh:263:7: note: 'ost::gui::WidgetStateSaver::' declared here 263 | class WidgetStateSaver: public BASE | ^~~~~~~~~~~~~~~~~~~~~~ [ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_perspective.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_perspective.cpp.o -MF CMakeFiles/ost_gui.dir/moc_perspective.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_perspective.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_perspective.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o -MF CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_dock_widget.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_window.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_window.cpp.o -MF CMakeFiles/ost_gui.dir/moc_main_window.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_main_window.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_main_window.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_dock_widget.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/dock_widget.hh:38:77: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/qtguiglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qtwidgetsglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qdockwidget.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QDockWidget:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/dock_widget.hh:31: /usr/include/arm-linux-gnueabihf/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) {} | ^~~~~~ [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o -MF CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_selection.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_main_window.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/qtguiglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qtwidgetsglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qmainwindow.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QMainWindow:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/main_window.hh:35: /usr/include/arm-linux-gnueabihf/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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /build/openstructure-2.3.1/modules/io/pymod/wrap_io.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget.cpp.o -MF CMakeFiles/ost_gui.dir/moc_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_widget.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/stereochemical_params_reader.hh:23, from /build/openstructure-2.3.1/modules/io/pymod/wrap_io.cc:36: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function 'std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const': /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/scene_selection.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_selection.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_selection.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o -MF CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget_geom_handler.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o -MF CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget_pool.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o -MF CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_message_widget.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o -MF CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_message_box_widget.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o -MF CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o.d -o CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_log_reader.cpp [ 70%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_pdb_io.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/export_pdb_io.cc.o -MF CMakeFiles/_ost_io.dir/export_pdb_io.cc.o.d -o CMakeFiles/_ost_io.dir/export_pdb_io.cc.o -c /build/openstructure-2.3.1/modules/io/pymod/export_pdb_io.cc [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_background_painter.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/align_properties_painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/io/pymod/export_pdb_io.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/background_painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_background_painter.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_background_painter.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/io_profile.hh:24, from /build/openstructure-2.3.1/modules/io/pymod/export_pdb_io.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /build/openstructure-2.3.1/modules/io/pymod/export_pdb_io.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_row.cpp [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/base_row.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_row.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_row.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/conservation_painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_painter.cpp [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_secstr_row.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_secstr_row.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_secstr_row.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_secstr_row.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_secstr_row.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_painter.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_painter.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/secstr_row.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_secstr_row.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_secstr_row.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 72%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o -MF CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o.d -o CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o -c /build/openstructure-2.3.1/modules/io/pymod/export_mmcif_io.cc [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_secstr_painter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_secstr_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_secstr_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_secstr_painter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/seq_secstr_painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/seq_selection_painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/io_profile.hh:24, from /build/openstructure-2.3.1/modules/io/pymod/export_mmcif_io.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:25, from /build/openstructure-2.3.1/modules/io/pymod/export_mmcif_io.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/seq_text_painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_delegate.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_model.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_model.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_model.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 72%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_row.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_row.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_row.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_row.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_table_view.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_search_bar.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_delegate.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_table_view.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_table_view.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_table_view.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_viewer.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_viewer.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_viewer.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_viewer.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_tick_painter.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/tick_painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_tick_painter.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_tick_painter.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_title_row.cpp [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_alignment_view_object.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/base_row.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/title_row.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_title_row.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_title_row.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/alignment_view_object.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_alignment_view_object.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_alignment_view_object.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_view_object.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/base_row.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/base_view_object.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_view_object.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_view_object.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_omf_io.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/export_omf_io.cc.o -MF CMakeFiles/_ost_io.dir/export_omf_io.cc.o.d -o CMakeFiles/_ost_io.dir/export_omf_io.cc.o -c /build/openstructure-2.3.1/modules/io/pymod/export_omf_io.cc [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_view_object.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/io/pymod/export_omf_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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_view_object.hh:32: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/omf.hh:26, from /build/openstructure-2.3.1/modules/io/pymod/export_omf_io.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mmcif_info.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/omf.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_main_thread_runner.cpp [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_completer_base.cpp [ 73%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_map_io.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/export_map_io.cc.o -MF CMakeFiles/_ost_io.dir/export_map_io.cc.o.d -o CMakeFiles/_ost_io.dir/export_map_io.cc.o -c /build/openstructure-2.3.1/modules/io/pymod/export_map_io.cc [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_gutter.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_output_redirector.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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_handler.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_df3_handler.hh:26, from /build/openstructure-2.3.1/modules/io/pymod/export_map_io.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_path_completer.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_completer.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_interpreter.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-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter_worker.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter_worker.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter_worker.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter_worker.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_interpreter_worker.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_namespace_tree_model.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_namespace_tree_model.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_namespace_tree_model.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_namespace_tree_model.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_namespace_tree_model.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_shell.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_shell.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_shell.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_shell.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_shell.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-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_shell_widget.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_shell_widget.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_shell_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_shell_widget.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_shell_widget.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_text_logger.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_text_logger.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_text_logger.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_text_logger.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_text_logger.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-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_shell_widget.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 74%] Linking CXX shared module ../../../stage/lib/python3.11/dist-packages/ost/io/_ost_io.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_io.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../stage/lib/python3.11/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_omf_io.cc.o CMakeFiles/_ost_io.dir/export_map_io.cc.o -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_io.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_img_alg.so.2.3.1 ../../../stage/lib/libost_img.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_state_machine.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_state_machine.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_state_machine.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_state_machine.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_state_machine.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/io/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/io/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/io/pymod/remote.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/io/./remote.pyc\",\"remote.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/io/pymod/repository.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/io/./repository.pyc\",\"repository.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 74%] Built target _ost_io [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_state.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_state.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_state.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_state.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_state.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_transition.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_transition.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_transition.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_transition.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_transition.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_transition_guard.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_transition_guard.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_transition_guard.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_transition_guard.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_transition_guard.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_bar.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_button_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_button_bar.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_button_bar.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/transition.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_drop_box.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_drop_box.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_drop_box.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_drop_box.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_drop_box.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-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/../../../../../modules/gui/src/python_shell/transition_guard.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_bar.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_manager.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/../../../../../modules/gui/src/panels/drop_box.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_drop_box.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_drop_box.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_bottom_bar.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_button_box.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_event_button.cpp [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_widget_container.cpp [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_bar_widget_holder.cpp [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_side_bar.cpp [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_splitter_panel_bar.cpp [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_tabbed_panel_bar.cpp [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_context_menu.cpp [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_current_selection_node.cpp [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_custom_part_node.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/context_menu.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_context_menu.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_context_menu.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/current_selection_node.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_current_selection_node.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_current_selection_node.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/custom_part_node.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_custom_part_node.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_custom_part_node.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_gfx_scene_node.cpp [ 77%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_label_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_part_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_mode_node.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/entity_node.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_node.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_node.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/entity_part_node.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_part_node.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_part_node.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/render_mode_node.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_mode_node.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_mode_node.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_modes_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_root_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/render_mode_node.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/render_modes_node.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_modes_node.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_modes_node.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win_model.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/scene_win.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/scene_win_model.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win_model.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win_model.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/../../../../../modules/gui/src/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_option_group.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_bar.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_option.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_manager.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/../../../../../modules/gui/src/tools/tool_bar.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_bar.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options_widget.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_measure_tool.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/../../../../../modules/gui/src/tools/tool_manager.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_manager.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options_win.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_argand.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/../../../../../modules/gui/src/tools/measure_tool.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_measure_tool.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/../../../../../modules/gui/src/tools/measure_tool.hh:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_measure_tool.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/../../../../../modules/gui/src/tools/tool_options_win.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options_win.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/argand.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_argand.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_argand.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_fft_panel.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_info_panel.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/info_panel.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_info_panel.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_info_panel.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data_observer.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/fft_panel.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_fft_panel.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_fft_panel.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_overlay_manager_gui.cpp [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/data_viewer.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/data_viewer.hh:37: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/qtguiglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qtwidgetsglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qmainwindow.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QMainWindow:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:35: /usr/include/arm-linux-gnueabihf/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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_null_overlay.cpp [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_overlay_base.cpp [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/thin_splitter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/thin_splitter.cc.o -MF CMakeFiles/ost_gui.dir/thin_splitter.cc.o.d -o CMakeFiles/ost_gui.dir/thin_splitter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/thin_splitter.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/pointlist_overlay_base.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp:10: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp:9: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/perspective.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/perspective.cc.o -MF CMakeFiles/ost_gui.dir/perspective.cc.o.d -o CMakeFiles/ost_gui.dir/perspective.cc.o -c /build/openstructure-2.3.1/modules/gui/src/perspective.cc [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_registry.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget_registry.cc.o -MF CMakeFiles/ost_gui.dir/widget_registry.cc.o.d -o CMakeFiles/ost_gui.dir/widget_registry.cc.o -c /build/openstructure-2.3.1/modules/gui/src/widget_registry.cc [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_browser.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/file_browser.cc.o -MF CMakeFiles/ost_gui.dir/file_browser.cc.o.d -o CMakeFiles/ost_gui.dir/file_browser.cc.o -c /build/openstructure-2.3.1/modules/gui/src/file_browser.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_browser.hh:23, from /build/openstructure-2.3.1/modules/gui/src/perspective.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/platform.hh:22, from /build/openstructure-2.3.1/modules/gui/src/perspective.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 81%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_type_dialog.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/file_type_dialog.cc.o -MF CMakeFiles/ost_gui.dir/file_type_dialog.cc.o.d -o CMakeFiles/ost_gui.dir/file_type_dialog.cc.o -c /build/openstructure-2.3.1/modules/gui/src/file_type_dialog.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_viewer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/file_viewer.cc.o -MF CMakeFiles/ost_gui.dir/file_viewer.cc.o.d -o CMakeFiles/ost_gui.dir/file_viewer.cc.o -c /build/openstructure-2.3.1/modules/gui/src/file_viewer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/modules/gui/src/file_type_dialog.hh:31, from /build/openstructure-2.3.1/modules/gui/src/file_type_dialog.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /build/openstructure-2.3.1/modules/gui/src/file_type_dialog.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/gui/src/file_browser.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:30, from /build/openstructure-2.3.1/modules/gui/src/file_browser.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/gui/src/file_browser.cc: In constructor 'ost::gui::FileBrowser::FileBrowser(QWidget*)': /build/openstructure-2.3.1/modules/gui/src/file_browser.cc:62:13: warning: 'QDirModel::QDirModel(QObject*)' is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] 62 | model_(new QDirModel), | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QDirModel:1, from /build/openstructure-2.3.1/modules/gui/src/file_browser.cc:53: /usr/include/arm-linux-gnueabihf/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-2.3.1/modules/gui/src/file_browser.cc: In constructor 'ost::gui::FileBrowser::FileBrowser(const QString&, QWidget*)': /build/openstructure-2.3.1/modules/gui/src/file_browser.cc:102:13: warning: 'QDirModel::QDirModel(QObject*)' is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] 102 | model_(new QDirModel), | ^~~~~~~~~ /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); | ^~~~~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/main.cc.o -MF CMakeFiles/ost_gui.dir/main.cc.o.d -o CMakeFiles/ost_gui.dir/main.cc.o -c /build/openstructure-2.3.1/modules/gui/src/main.cc [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gl_canvas.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/gl_canvas.cc.o -MF CMakeFiles/ost_gui.dir/gl_canvas.cc.o.d -o CMakeFiles/ost_gui.dir/gl_canvas.cc.o -c /build/openstructure-2.3.1/modules/gui/src/gl_canvas.cc [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/dock_widget.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/dock_widget.cc.o -MF CMakeFiles/ost_gui.dir/dock_widget.cc.o.d -o CMakeFiles/ost_gui.dir/dock_widget.cc.o -c /build/openstructure-2.3.1/modules/gui/src/dock_widget.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/modules/gui/src/dock_widget.cc:25: /build/openstructure-2.3.1/modules/gui/src/dock_widget.hh:38:77: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/qtguiglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qtwidgetsglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qdockwidget.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QDockWidget:1, from /build/openstructure-2.3.1/modules/gui/src/dock_widget.hh:31: /usr/include/arm-linux-gnueabihf/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) {} | ^~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main_window.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/main_window.cc.o -MF CMakeFiles/ost_gui.dir/main_window.cc.o.d -o CMakeFiles/ost_gui.dir/main_window.cc.o -c /build/openstructure-2.3.1/modules/gui/src/main_window.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:24, from /build/openstructure-2.3.1/modules/gui/src/main.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/modules/gui/src/gl_canvas.hh:23, from /build/openstructure-2.3.1/modules/gui/src/gl_canvas.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/modules/gui/src/tools/tool_options_win.hh:27, from /build/openstructure-2.3.1/modules/gui/src/main.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qbytearray.h:45, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:50, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ /build/openstructure-2.3.1/modules/gui/src/main.cc: In static member function 'static QSize ost::gui::GostyMainWindow::GetDefaultSize()': /build/openstructure-2.3.1/modules/gui/src/main.cc:59:64: 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/arm-linux-gnueabihf/qt5/QtWidgets/QDesktopWidget:1, from /build/openstructure-2.3.1/modules/gui/src/main.cc:35: /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qdesktopwidget.h:88:67: note: declared here 88 | QT_DEPRECATED_X("Use QGuiApplication::screens()") const QRect availableGeometry(int screen = -1) const; | ^~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh: In instantiation of 'ost::gui::WidgetStateSaver::~WidgetStateSaver() [with BASE = QMainWindow]': /build/openstructure-2.3.1/modules/gui/src/main.cc:69:69: required from here /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:323:8: warning: the address of 'ost::gui::WidgetStateSaver::' will never be NULL [-Waddress] 323 | if(dynamic_cast(this)){ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:263:7: note: 'ost::gui::WidgetStateSaver::' declared here 263 | class WidgetStateSaver: public BASE | ^~~~~~~~~~~~~~~~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh: In instantiation of 'void ost::gui::WidgetStateSaver::set_state_() [with BASE = QMainWindow]': /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:286:5: required from 'ost::gui::WidgetStateSaver::WidgetStateSaver(const QString&, QPoint, QSize, QWidget*) [with BASE = QMainWindow]' /build/openstructure-2.3.1/modules/gui/src/main.cc:69:69: required from here /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:305:10: warning: the address of 'ost::gui::WidgetStateSaver::' will never be NULL [-Waddress] 305 | if(dynamic_cast(this)){ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:263:7: note: 'ost::gui::WidgetStateSaver::' declared here 263 | class WidgetStateSaver: public BASE | ^~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gui/src/gl_canvas.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/glwin_base.hh:28, from /build/openstructure-2.3.1/modules/gui/src/gl_canvas.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/gui/src/main_window.cc:25: /build/openstructure-2.3.1/modules/gui/src/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/qtguiglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qtwidgetsglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qmainwindow.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QMainWindow:1, from /build/openstructure-2.3.1/modules/gui/src/main_window.hh:35: /usr/include/arm-linux-gnueabihf/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-2.3.1/modules/gui/src/main_window.cc:26: /build/openstructure-2.3.1/modules/gui/src/dock_widget.hh:38:77: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 38 | DockWidget(const QString& title, QWidget* parent=0, Qt::WindowFlags flags=0); | ^ /usr/include/arm-linux-gnueabihf/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-2.3.1/modules/gui/src/dock_widget.hh: In member function 'void ost::gui::MainWindow::AddDockWidget(QWidget*, const QString&, bool, int)': /build/openstructure-2.3.1/modules/gui/src/dock_widget.hh:38:77: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 38 | DockWidget(const QString& title, QWidget* parent=0, Qt::WindowFlags flags=0); | ^ /usr/include/arm-linux-gnueabihf/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-2.3.1/modules/gui/src/main_window.cc:71:33: 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/arm-linux-gnueabihf/qt5/QtWidgets/qaction.h:47, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qmenu.h:47, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QMenu:1, from /build/openstructure-2.3.1/modules/gui/src/main_window.hh:36: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qvariant.h:530:17: note: declared here 530 | inline QVariant qVariantFromValue(const T &t) | ^~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:29: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | 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/gl_win.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/gl_win.cc.o -MF CMakeFiles/ost_gui.dir/gl_win.cc.o.d -o CMakeFiles/ost_gui.dir/gl_win.cc.o -c /build/openstructure-2.3.1/modules/gui/src/gl_win.cc /build/openstructure-2.3.1/modules/gui/src/gl_canvas.cc: In member function 'void ost::gui::GLCanvas::HandleMouseMoveEvent(QMouseEvent*)': /build/openstructure-2.3.1/modules/gui/src/gl_canvas.cc:373:32: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 373 | if (event->buttons() & Qt::MidButton) { | ^~~~~~~~~ /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ /build/openstructure-2.3.1/modules/gui/src/gl_canvas.cc:399:37: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 399 | } else if (event->buttons() & Qt::MidButton) { | ^~~~~~~~~ /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ /build/openstructure-2.3.1/modules/gui/src/gl_canvas.cc: In member function 'virtual void ost::gui::GLCanvas::wheelEvent(QWheelEvent*)': /build/openstructure-2.3.1/modules/gui/src/gl_canvas.cc:488:50: warning: 'int QWheelEvent::delta() const' is deprecated: Use angleDelta() [-Wdeprecated-declarations] 488 | 0.2*static_cast(-event->delta())); | ~~~~~~~~~~~~^~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtGui/QMouseEvent:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:25: /usr/include/arm-linux-gnueabihf/qt5/QtGui/qevent.h:219:16: note: declared here 219 | inline int delta() const { return qt4D; } | ^~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_menu.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_menu.cc.o -MF CMakeFiles/ost_gui.dir/scene_menu.cc.o.d -o CMakeFiles/ost_gui.dir/scene_menu.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_menu.cc [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget.cc.o -MF CMakeFiles/ost_gui.dir/widget.cc.o.d -o CMakeFiles/ost_gui.dir/widget.cc.o -c /build/openstructure-2.3.1/modules/gui/src/widget.cc [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/admin.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/admin.cc.o -MF CMakeFiles/ost_gui.dir/admin.cc.o.d -o CMakeFiles/ost_gui.dir/admin.cc.o -c /build/openstructure-2.3.1/modules/gui/src/admin.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_pool.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget_pool.cc.o -MF CMakeFiles/ost_gui.dir/widget_pool.cc.o.d -o CMakeFiles/ost_gui.dir/widget_pool.cc.o -c /build/openstructure-2.3.1/modules/gui/src/widget_pool.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gui/src/gl_win.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gl_canvas.hh:23, from /build/openstructure-2.3.1/modules/gui/src/gl_win.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qbytearray.h:45, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:50, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_op.hh:29, from /build/openstructure-2.3.1/modules/gui/src/scene_menu.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_widget.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_widget.cc.o -MF CMakeFiles/ost_gui.dir/messages/message_widget.cc.o.d -o CMakeFiles/ost_gui.dir/messages/message_widget.cc.o -c /build/openstructure-2.3.1/modules/gui/src/messages/message_widget.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o -MF CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o.d -o CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o -c /build/openstructure-2.3.1/modules/gui/src/messages/message_box_widget.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/log_reader.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/log_reader.cc.o -MF CMakeFiles/ost_gui.dir/messages/log_reader.cc.o.d -o CMakeFiles/ost_gui.dir/messages/log_reader.cc.o -c /build/openstructure-2.3.1/modules/gui/src/messages/log_reader.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/align_properties_painter.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_row.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/background_painter.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/align_properties_painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/align_properties_painter.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_row.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_row.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/background_painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/background_painter.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/conservation_painter.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/secstr_row.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_secstr_painter.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/conservation_painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/conservation_painter.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_secstr_painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_secstr_painter.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/secstr_row.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_selection_painter.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_text_painter.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_selection_painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_selection_painter.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_delegate.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_text_painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_text_painter.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh:28, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_delegate.hh:28, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_delegate.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.cc [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_row.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_row.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/title_row.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_search_bar.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_row.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh:30, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_view_object.hh:32, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_row.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_search_bar.hh:26, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_search_bar.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_search_bar.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_table_view.cc [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_viewer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh:28, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_delegate.hh:28, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_table_view.hh:29, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_table_view.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_table_view.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/tick_painter.cc /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_table_view.cc: In member function 'virtual int ost::gui::SequenceTableView::sizeHintForColumn(int) const': /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_table_view.cc:480:35: 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/arm-linux-gnueabihf/qt5/QtGui/qpainter.h:59, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/QPainter:1, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:30, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_row.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_view_object.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh:35: /usr/include/arm-linux-gnueabihf/qt5/QtGui/qfontmetrics.h:110:9: note: declared here 110 | int width(QChar) 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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/title_row.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_viewer.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/tick_painter.hh:27, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/tick_painter.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/algorithm:60, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:142, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QtCore:4, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/QtGuiDepends:3, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/QtGui:3, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/tick_painter.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh:30, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_viewer.cc:39: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_viewer.cc: In member function 'void ost::gui::SequenceViewer::MouseWheelEvent(QWheelEvent*)': /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_viewer.cc:298:27: warning: 'int QWheelEvent::delta() const' is deprecated: Use angleDelta() [-Wdeprecated-declarations] 298 | int delta = event->delta(); | ~~~~~~~~~~~~^~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtGui/QWheelEvent:1, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_table_view.hh:32, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_viewer.cc:42: /usr/include/arm-linux-gnueabihf/qt5/QtGui/qevent.h:219:16: note: declared here 219 | inline int delta() const { return qt4D; } | ^~~~~ /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_viewer.cc:299:25: warning: 'Qt::Orientation QWheelEvent::orientation() const' is deprecated: Use angleDelta() [-Wdeprecated-declarations] 299 | if (event->orientation() == Qt::Vertical) { | ~~~~~~~~~~~~~~~~~~^~ /usr/include/arm-linux-gnueabihf/qt5/QtGui/qevent.h:222:28: note: declared here 222 | inline Qt::Orientation orientation() const { return qt4O; } | ^~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh:28, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/title_row.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/alignment_view_object.cc [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_view_object.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/alignment_view_object.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:26, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/alignment_view_object.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o -c /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_view_object.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_view_object.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gosty_app.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/gosty_app.cc.o -MF CMakeFiles/ost_gui.dir/gosty_app.cc.o.d -o CMakeFiles/ost_gui.dir/gosty_app.cc.o -c /build/openstructure-2.3.1/modules/gui/src/gosty_app.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_view_object.hh:32, from /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_view_object.cc:32: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main_area.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/main_area.cc.o -MF CMakeFiles/ost_gui.dir/main_area.cc.o.d -o CMakeFiles/ost_gui.dir/main_area.cc.o -c /build/openstructure-2.3.1/modules/gui/src/main_area.cc [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_state_saver.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget_state_saver.cc.o -MF CMakeFiles/ost_gui.dir/widget_state_saver.cc.o.d -o CMakeFiles/ost_gui.dir/widget_state_saver.cc.o -c /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/modules/gui/src/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_selection.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_selection.cc.o -MF CMakeFiles/ost_gui.dir/scene_selection.cc.o.d -o CMakeFiles/ost_gui.dir/scene_selection.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_selection.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_win.hh:27, from /build/openstructure-2.3.1/modules/gui/src/gosty_app.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qbytearray.h:45, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:50, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o -MF CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o.d -o CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o -c /build/openstructure-2.3.1/modules/gui/src/widget_geom_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh:23, from /build/openstructure-2.3.1/modules/gui/src/gosty_app.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:28, from /build/openstructure-2.3.1/modules/gui/src/gosty_app.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh:37, from /build/openstructure-2.3.1/modules/gui/src/gosty_app.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qchar.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:49: /usr/include/arm-linux-gnueabihf/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) {} | ^~~~~~ [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_loader.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/file_loader.cc.o -MF CMakeFiles/ost_gui.dir/file_loader.cc.o.d -o CMakeFiles/ost_gui.dir/file_loader.cc.o -c /build/openstructure-2.3.1/modules/gui/src/file_loader.cc [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_bar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/button_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/button_bar.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/button_bar.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_op.hh:29, from /build/openstructure-2.3.1/modules/gui/src/scene_selection.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh:37, from /build/openstructure-2.3.1/modules/gui/src/scene_selection.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qchar.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:49, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/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) {} | ^~~~~~ [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/drop_box.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/drop_box.cc.o -MF CMakeFiles/ost_gui.dir/panels/drop_box.cc.o.d -o CMakeFiles/ost_gui.dir/panels/drop_box.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/drop_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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/modules/gui/src/file_loader.hh:24, from /build/openstructure-2.3.1/modules/gui/src/file_loader.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/modules/gui/src/panels/drop_box.hh:22, from /build/openstructure-2.3.1/modules/gui/src/panels/drop_box.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /usr/include/boost/ptr_container/ptr_vector.hpp:19, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/modules/gui/src/file_loader.hh:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/panel_bar.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh:37, from /build/openstructure-2.3.1/modules/gui/src/file_loader.cc:51: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qchar.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:49, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/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) {} | ^~~~~~ [ 86%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/bottom_bar.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_box.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_box.cc.o -MF CMakeFiles/ost_gui.dir/panels/button_box.cc.o.d -o CMakeFiles/ost_gui.dir/panels/button_box.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/button_box.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/modules/gui/src/panels/drop_box.hh:22, from /build/openstructure-2.3.1/modules/gui/src/panels/panel_bar.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/event_button.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/event_button.cc.o -MF CMakeFiles/ost_gui.dir/panels/event_button.cc.o.d -o CMakeFiles/ost_gui.dir/panels/event_button.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/event_button.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o -MF CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o.d -o CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/panel_manager.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o -MF CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o.d -o CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/panel_widget_container.cc /build/openstructure-2.3.1/modules/gui/src/panels/event_button.cc: In member function 'virtual void ost::gui::EventButton::mouseMoveEvent(QMouseEvent*)': /build/openstructure-2.3.1/modules/gui/src/panels/event_button.cc:50:15: 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/arm-linux-gnueabihf/qt5/QtGui/QDrag:1, from /build/openstructure-2.3.1/modules/gui/src/panels/event_button.cc:22: /usr/include/arm-linux-gnueabihf/qt5/QtGui/qdrag.h:79:20: note: declared here 79 | Qt::DropAction start(Qt::DropActions supportedActions = Qt::CopyAction); | ^~~~~ [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o -MF CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o.d -o CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/panel_bar_widget_holder.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/side_bar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/side_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/side_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/side_bar.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/side_bar.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/splitter_panel_bar.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o -c /build/openstructure-2.3.1/modules/gui/src/panels/tabbed_panel_bar.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/tool_option_group.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_options.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_options.cc.o -c /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_option.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_option.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/tool_option.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/tool_manager.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/tool_options_win.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/tool.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/modules/gui/src/tools/tool_manager.hh:24, from /build/openstructure-2.3.1/modules/gui/src/tools/tool_manager.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o -MF CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o.d -o CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/mouse_event.cc In file included from /build/openstructure-2.3.1/modules/gui/src/tools/tool.hh:30, from /build/openstructure-2.3.1/modules/gui/src/tools/tool.cc:19: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/manipulator.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/manipulator.cc.o -MF CMakeFiles/ost_gui.dir/tools/manipulator.cc.o.d -o CMakeFiles/ost_gui.dir/tools/manipulator.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/manipulator.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/modules/gui/src/tools/mouse_event.cc:19: /build/openstructure-2.3.1/modules/gui/src/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/modules/gui/src/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/tool_options_widget.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_win.hh:27, from /build/openstructure-2.3.1/modules/gui/src/tools/tool_options_win.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qbytearray.h:45, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:50, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/tool_bar.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o -MF CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o.d -o CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/selection_tool.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, 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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gui/src/tools/manipulator.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/modules/gui/src/tools/manipulator.hh:29, from /build/openstructure-2.3.1/modules/gui/src/tools/manipulator.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qbytearray.h:45, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:50, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/modules/gui/src/tools/selection_tool.hh:26, from /build/openstructure-2.3.1/modules/gui/src/tools/selection_tool.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gui/src/tools/selection_tool.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o -MF CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o.d -o CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/measure_tool.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/gutter.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/modules/gui/src/tools/tool_bar.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_manager.hh:24, from /build/openstructure-2.3.1/modules/gui/src/tools/tool_bar.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qbytearray.h:45, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:50, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/main_thread_runner.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/modules/gui/src/tools/measure_tool.hh:26, from /build/openstructure-2.3.1/modules/gui/src/tools/measure_tool.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/modules/gui/src/tools/measure_tool.hh:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/completer_base.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/dir_model.cc /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.cc: In member function 'void ost::gui::OutputRedirector::Write(const String&)': /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.cc:42:22: warning: 'int QTime::elapsed() const' is deprecated: Use QElapsedTimer instead [-Wdeprecated-declarations] 42 | if(timer_.elapsed()>1000){ | ~~~~~~~~~~~~~~^~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.cc:25: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:237:54: note: declared here 237 | QT_DEPRECATED_X("Use QElapsedTimer instead") int elapsed() const; | ^~~~~~~ /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.cc:46:21: warning: 'int QTime::restart()' is deprecated: Use QElapsedTimer instead [-Wdeprecated-declarations] 46 | timer_.restart(); | ~~~~~~~~~~~~~~^~ /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:236:54: note: declared here 236 | QT_DEPRECATED_X("Use QElapsedTimer instead") int restart(); | ^~~~~~~ /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.cc:52:17: warning: 'void QTime::start()' is deprecated: Use QElapsedTimer instead [-Wdeprecated-declarations] 52 | timer_.start(); | ~~~~~~~~~~~~^~ /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:235:55: note: declared here 235 | QT_DEPRECATED_X("Use QElapsedTimer instead") void start(); | ^~~~~ [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/path_completer.cc /build/openstructure-2.3.1/modules/gui/src/python_shell/dir_model.cc: In constructor 'ost::gui::OstDirModel::OstDirModel(QObject*)': /build/openstructure-2.3.1/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/arm-linux-gnueabihf/qt5/QtWidgets/QDirModel:1, from /build/openstructure-2.3.1/modules/gui/src/python_shell/dir_model.hh:26, from /build/openstructure-2.3.1/modules/gui/src/python_shell/dir_model.cc:23: /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); | ^~~~~~~~~ [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_context_parser.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_completer.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_interpreter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_interpreter.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_interpreter.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_interpreter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_interpreter_worker.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_interpreter_worker.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_interpreter_worker.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_interpreter_worker.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_namespace_tree_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-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_namespace_tree_model.cc:19: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ /build/openstructure-2.3.1/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-2.3.1/modules/gui/src/python_shell/python_namespace_tree_model.cc:110:12: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::ItemFlag; Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 110 | return 0; | ^ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qchar.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:49, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/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%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_namespace_tree_item.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_widget.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_widget.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_shell_widget.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_shell_widget.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.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-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/gui/src/python_shell/python_namespace_tree_item.hh:25, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_text_document_layout.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_tokenizer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_tokenizer.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_tokenizer.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_tokenizer.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_tokenizer.cc /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.cc: In constructor 'ost::gui::PythonShellWidget::PythonShellWidget(QWidget*)': /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.cc:79:34: 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/arm-linux-gnueabihf/qt5/QtWidgets/qwidget.h:50, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qframe.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qabstractscrollarea.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qtextedit.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qplaintextedit.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QPlainTextEdit:1, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.hh:34: /usr/include/arm-linux-gnueabihf/qt5/QtGui/qfontmetrics.h:106:9: note: declared here 106 | int width(const QString &, int len = -1) const; | ^~~~~ /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.cc:79:18: warning: 'void QPlainTextEdit::setTabStopWidth(int)' is deprecated [-Wdeprecated-declarations] 79 | setTabStopWidth(2*metrics.width(" ")); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qplaintextedit.h:179:24: note: declared here 179 | QT_DEPRECATED void setTabStopWidth(int width); | ^~~~~~~~~~~~~~~ /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.cc: In member function 'void ost::gui::PythonShellWidget::SetTabWidth(int)': /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.cc:537:43: warning: 'int QFontMetrics::width(const QString&, int) const' is deprecated: Use QFontMetrics::horizontalAdvance [-Wdeprecated-declarations] 537 | setTabStopWidth(tab_width_*metrics.width(" ")); | ~~~~~~~~~~~~~^~~~~ /usr/include/arm-linux-gnueabihf/qt5/QtGui/qfontmetrics.h:106:9: note: declared here 106 | int width(const QString &, int len = -1) const; | ^~~~~ /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.cc:537:18: warning: 'void QPlainTextEdit::setTabStopWidth(int)' is deprecated [-Wdeprecated-declarations] 537 | setTabStopWidth(tab_width_*metrics.width(" ")); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qplaintextedit.h:179:24: note: declared here 179 | QT_DEPRECATED void setTabStopWidth(int width); | ^~~~~~~~~~~~~~~ [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_syntax_highlighter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_syntax_highlighter.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_syntax_highlighter.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_syntax_highlighter.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/python_syntax_highlighter.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/shell_history.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/shell_history.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/shell_history.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/shell_history.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/shell_history.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/string_literal_positions.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/string_literal_positions.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/string_literal_positions.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/string_literal_positions.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/string_literal_positions.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/text_logger.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/text_logger.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/text_logger.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/text_logger.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/text_logger.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/state_machine.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/state_machine.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/state_machine.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/state_machine.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/state_machine.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/state.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/state.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/state.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/state.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/state.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-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/modules/gui/src/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/transition.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/transition.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/transition.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/modules/gui/src/python_shell/transition.hh:23, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o -c /build/openstructure-2.3.1/modules/gui/src/python_shell/transition_guard.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o -c /build/openstructure-2.3.1/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-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gui/src/scene_win/context_menu.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/pointer_cast.hpp:52, from /build/openstructure-2.3.1/modules/gui/src/scene_win/context_menu.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/modules/gui/src/python_shell/transition_guard.hh:24, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/current_selection_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/current_selection_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/current_selection_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/current_selection_node.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/current_selection_node.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/custom_part_node.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o -c /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/modules/gui/src/scene_win/custom_part_node.hh:23, from /build/openstructure-2.3.1/modules/gui/src/scene_win/custom_part_node.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/label_node.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/modules/gui/src/scene_win/current_selection_node.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/entity_node.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/entity_part_node.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /build/openstructure-2.3.1/modules/gui/src/scene_win/label_node.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /build/openstructure-2.3.1/modules/gui/src/scene_win/label_node.hh:23, from /build/openstructure-2.3.1/modules/gui/src/scene_win/label_node.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/gfx_scene_node.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/modules/gui/src/scene_win/entity_part_node.hh:23, from /build/openstructure-2.3.1/modules/gui/src/scene_win/entity_part_node.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh:28, from /build/openstructure-2.3.1/modules/gui/src/scene_win/gfx_scene_node.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node_fw.hh:25, from /build/openstructure-2.3.1/modules/gui/src/scene_win/gfx_scene_node.hh:23, from /build/openstructure-2.3.1/modules/gui/src/scene_win/gfx_scene_node.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/render_mode_node.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/modules/gui/src/scene_win/entity_node.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/render_modes_node.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/modules/gui/src/scene_win/render_mode_node.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/root_node.cc [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gui/src/scene_win/root_node.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /build/openstructure-2.3.1/modules/gui/src/scene_win/root_node.hh:23, from /build/openstructure-2.3.1/modules/gui/src/scene_win/root_node.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o -c /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win_model.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /build/openstructure-2.3.1/modules/gui/src/scene_win/render_modes_node.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/map_tool.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/map_tool.cc.o -MF CMakeFiles/ost_gui.dir/tools/map_tool.cc.o.d -o CMakeFiles/ost_gui.dir/tools/map_tool.cc.o -c /build/openstructure-2.3.1/modules/gui/src/tools/map_tool.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win_model.hh:28, from /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win_model.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win_model.hh:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win_model.cc: In member function 'virtual QMimeData* ost::gui::SceneWinModel::mimeData(const QModelIndexList&) const': /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win_model.cc:231:26: 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/arm-linux-gnueabihf/qt5/QtCore/qobject.h:47, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QObject:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_node.hh:24, from /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win_model.hh:34: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:1511:20: note: declared here 1511 | inline QByteArray &QByteArray::append(const QString &s) | ^~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_selection.hh:23, from /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win.cc: In member function 'void ost::gui::SceneWin::RowsInserted(const QModelIndex&, int, int)': /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win.cc:117:31: 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/arm-linux-gnueabihf/qt5/QtCore/QModelIndex:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_node.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh:34, from /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win.cc:26: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qabstractitemmodel.h:455:20: note: declared here 455 | inline QModelIndex QModelIndex::child(int arow, int acolumn) const | ^~~~~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/argand.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/map_slab.hh:29, from /build/openstructure-2.3.1/modules/gui/src/tools/map_tool.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/platform.hh:22, from /build/openstructure-2.3.1/modules/gui/src/tools/map_tool.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer.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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/map_slab.hh: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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/argand.hh:30, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/argand.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/argand.cc:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/modules/gui/src/tools/map_tool.hh:26, from /build/openstructure-2.3.1/modules/gui/src/tools/map_tool.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qbytearray.h:45, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:50, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/modules/gui/src/tools/map_tool.cc:25: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.cc [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm_linear.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm.hh:30, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer.cc:36: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer.cc:37: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/dock_widget.hh:38:77: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qchar.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:49, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33: /usr/include/arm-linux-gnueabihf/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-2.3.1/modules/gui/src/data_viewer/data_viewer.hh:37, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer.cc:41: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 46 | MainWindow(QWidget* parent=0, Qt::WindowFlags flags=0); | ^ /usr/include/arm-linux-gnueabihf/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-2.3.1/modules/gui/src/data_viewer/data_viewer.cc: In constructor 'ost::img::gui::DataViewer::DataViewer(QWidget*, const ost::img::ImageHandle&, const QString&)': /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer.cc:75:14: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; Zero = int QFlags::Private::*]' is deprecated: Use default constructor instead [-Wdeprecated-declarations] 75 | lastmouse_() | ^ /usr/include/arm-linux-gnueabihf/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-2.3.1/modules/gui/src/data_viewer/data_viewer.cc: In member function 'void ost::img::gui::DataViewer::build(const ost::img::ImageHandle&)': /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer.cc:315:54: 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/arm-linux-gnueabihf/qt5/QtWidgets/QDesktopWidget:1, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer.cc:53: /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qdesktopwidget.h:88:67: note: declared here 88 | QT_DEPRECATED_X("Use QGuiApplication::screens()") const QRect availableGeometry(int screen = -1) const; | ^~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm_linear.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm.hh:30, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/draw_overlay.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/drawing_functions.cc /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'virtual void ost::img::gui::DataViewerPanelBase::paintEvent(QPaintEvent*)': /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc:440:56: 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/arm-linux-gnueabihf/qt5/QtGui/QPixmapCache:1, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc:40: /usr/include/arm-linux-gnueabihf/qt5/QtGui/qpixmapcache.h:81:17: note: declared here 81 | static bool find(const QString &key, QPixmap &pixmap); | ^~~~ /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'virtual void ost::img::gui::DataViewerPanelBase::mouseMoveEvent(QMouseEvent*)': /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc:602:38: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 602 | } else if((event->buttons() == Qt::MidButton) && HasSelection()) { | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qobjectdefs.h:48, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/qwindowdefs.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qwidget.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QWidget:1, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.hh:46, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc:34: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'virtual void ost::img::gui::DataViewerPanelBase::wheelEvent(QWheelEvent*)': /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc:613:18: warning: 'int QWheelEvent::delta() const' is deprecated: Use angleDelta() [-Wdeprecated-declarations] 613 | if(event->delta()>0) { | ~~~~~~~~~~~~^~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtGui/QResizeEvent:1, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc:36: /usr/include/arm-linux-gnueabihf/qt5/QtGui/qevent.h:219:16: note: declared here 219 | inline int delta() const { return qt4D; } | ^~~~~ /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc: In member function 'void ost::img::gui::DataViewerPanelBase::draw_pixel_values(QPainter&)': /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc:1074:49: 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/arm-linux-gnueabihf/qt5/QtWidgets/qwidget.h:50: /usr/include/arm-linux-gnueabihf/qt5/QtGui/qfontmetrics.h:106:9: note: declared here 106 | int width(const QString &, int len = -1) const; | ^~~~~ /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.cc:1090:49: warning: 'int QFontMetrics::width(const QString&, int) const' is deprecated: Use QFontMetrics::horizontalAdvance [-Wdeprecated-declarations] 1090 | int string_w=painter.fontMetrics().width(value_string); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/arm-linux-gnueabihf/qt5/QtGui/qfontmetrics.h:106:9: note: declared here 106 | int width(const QString &, int len = -1) const; | ^~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/draw_overlay.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/drawing_functions.hh:28, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/drawing_functions.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/algorithm:60, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/drawing_functions.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/fft_panel.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/info_panel.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/img2qt.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/fft.hh:27, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/fft_panel.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/fft.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/info_panel.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /usr/include/boost/format.hpp:17, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/info_panel.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/img2qt.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/mask_overlay.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/null_overlay.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/circle_mask.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/mask_visitor.hh:28, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/mask_overlay.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_base.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager_gui.cc [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay_base.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay.cc:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/strategies.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay_base.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/strategies.hh:29, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/strategies.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/12/vector:70, from /usr/include/c++/12/functional:62, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:37, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.hh:32: /usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]': /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:1294:21, inlined from 'virtual bool ost::img::gui::PointlistOverlay::OnMouseEvent(QMouseEvent*, ost::img::gui::DataViewerPanel*, const QPoint&)' at /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay.cc:108:25, inlined from 'virtual bool ost::img::gui::PointlistOverlay::OnMouseEvent(QMouseEvent*, ost::img::gui::DataViewerPanel*, const QPoint&)' at /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay.cc:95:6: /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:1294:21, inlined from 'void ost::img::gui::PointlistOverlay::Add(const ost::img::Point&, double)' at /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay.cc:59:23: /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]': /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]' at /usr/include/c++/12/bits/stl_vector.h:1294:21, inlined from 'virtual void ost::img::gui::PointlistOverlay::OnDraw(QPainter&, ost::img::gui::DataViewerPanel*, bool)' at /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay.cc:87:25: /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o -c /build/openstructure-2.3.1/modules/gui/src/data_viewer/viewer_normalizer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/stat.hh:30, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/viewer_normalizer.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/gui/src/data_viewer/viewer_normalizer.cc:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 96%] Linking CXX shared library 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CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../stage/lib/libost_gfx.so.2.3.1 ../../../stage/lib/libost_io.so.2.3.1 ../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../stage/lib/libost_seq_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_img_alg.so.2.3.1 ../../../stage/lib/libost_img.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_gui.so.2.3.1 ../../../stage/lib/libost_gui.so.2.3 ../../../stage/lib/libost_gui.so make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 96%] Built target ost_gui make -f modules/gui/src/CMakeFiles/gosty.dir/build.make modules/gui/src/CMakeFiles/gosty.dir/depend 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-2.3.1/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/_ost_gui.dir/DependInfo.cmake --color= [ 96%] Generating qrc_dngr.cpp cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/rcc --name dngr --output /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/qrc_dngr.cpp /build/openstructure-2.3.1/modules/gui/src/dngr.qrc [ 96%] Generating moc_gosty.cpp make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_gosty.cpp_parameters make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/gosty.dir/DependInfo.cmake --color= [ 96%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/wrap_gui.cc.o make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/wrap_gui.cc.o -MF CMakeFiles/_ost_gui.dir/wrap_gui.cc.o.d -o CMakeFiles/_ost_gui.dir/wrap_gui.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/wrap_gui.cc make -f modules/gui/src/CMakeFiles/gosty.dir/build.make modules/gui/src/CMakeFiles/gosty.dir/build [ 96%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o -MF CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o.d -o CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_alignment_view.cc make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/gosty.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gui/src/CMakeFiles/gosty.dir/gosty.cc.o -MF CMakeFiles/gosty.dir/gosty.cc.o.d -o CMakeFiles/gosty.dir/gosty.cc.o -c /build/openstructure-2.3.1/modules/gui/src/gosty.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-2.3.1/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-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ /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-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:28, from /build/openstructure-2.3.1/modules/gui/pymod/export_alignment_view.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_message_widget.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_message_widget.cc.o -MF CMakeFiles/_ost_gui.dir/export_message_widget.cc.o.d -o CMakeFiles/_ost_gui.dir/export_message_widget.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_message_widget.cc [ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_win.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_win.cc.o -MF CMakeFiles/_ost_gui.dir/export_gl_win.cc.o.d -o CMakeFiles/_ost_gui.dir/export_gl_win.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_gl_win.cc [ 97%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/moc_gosty.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gui/src/CMakeFiles/gosty.dir/moc_gosty.cpp.o -MF CMakeFiles/gosty.dir/moc_gosty.cpp.o.d -o CMakeFiles/gosty.dir/moc_gosty.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/moc_gosty.cpp [ 97%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/qrc_dngr.cpp.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gui/src/CMakeFiles/gosty.dir/qrc_dngr.cpp.o -MF CMakeFiles/gosty.dir/qrc_dngr.cpp.o.d -o CMakeFiles/gosty.dir/qrc_dngr.cpp.o -c /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/qrc_dngr.cpp [ 97%] Linking CXX executable ../../../stage/lib/openstructure/libexec/gosty cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/gosty.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_gui.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../stage/lib/libost_gfx.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so ../../../stage/lib/libost_io.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so ../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img_alg.so.2.3.1 ../../../stage/lib/libost_img.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../stage/lib/libost_seq.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target gosty [ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_tool.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_tool.cc.o -MF CMakeFiles/_ost_gui.dir/export_tool.cc.o.d -o CMakeFiles/_ost_gui.dir/export_tool.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_tool.cc In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, 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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_py_shell.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_py_shell.cc.o -MF CMakeFiles/_ost_gui.dir/export_py_shell.cc.o.d -o CMakeFiles/_ost_gui.dir/export_py_shell.cc.o -c /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gosty.cc.o -MF CMakeFiles/_ost_gui.dir/export_gosty.cc.o.d -o CMakeFiles/_ost_gui.dir/export_gosty.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_gosty.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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/modules/gui/pymod/export_tool.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh:23, from /build/openstructure-2.3.1/modules/gui/pymod/export_gosty.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_win.hh:27, from /build/openstructure-2.3.1/modules/gui/pymod/export_gosty.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qbytearray.h:45, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:50, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qdatetime.h:44, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QTime:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /build/openstructure-2.3.1/modules/gui/pymod/export_gosty.cc:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:28, from /build/openstructure-2.3.1/modules/gui/pymod/export_gosty.cc:32: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_win.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_win.cc.o -MF CMakeFiles/_ost_gui.dir/export_scene_win.cc.o.d -o CMakeFiles/_ost_gui.dir/export_scene_win.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_scene_win.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh:37, from /build/openstructure-2.3.1/modules/gui/pymod/data_viewer_proxy.hh:41, from /build/openstructure-2.3.1/modules/gui/pymod/export_gosty.cc:38: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qchar.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qstring.h:49: /usr/include/arm-linux-gnueabihf/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) {} | ^~~~~~ [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o -MF CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o.d -o CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_sequence_viewer.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh:23, from /build/openstructure-2.3.1/modules/gui/pymod/export_scene_win.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_perspective.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_perspective.cc.o -MF CMakeFiles/_ost_gui.dir/export_perspective.cc.o.d -o CMakeFiles/_ost_gui.dir/export_perspective.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_perspective.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o -MF CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o.d -o CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_sip_handler.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:28, from /build/openstructure-2.3.1/modules/gui/pymod/export_sequence_viewer.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o -MF CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o.d -o CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o -c /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_main_area.cc.o -MF CMakeFiles/_ost_gui.dir/export_main_area.cc.o.d -o CMakeFiles/_ost_gui.dir/export_main_area.cc.o -c /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_panels.cc.o -MF CMakeFiles/_ost_gui.dir/export_panels.cc.o.d -o CMakeFiles/_ost_gui.dir/export_panels.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_panels.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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_selection.hh:23, from /build/openstructure-2.3.1/modules/gui/pymod/export_scene_selection.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o -MF CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o.d -o CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o -c /build/openstructure-2.3.1/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-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_loader.cc.o -MF CMakeFiles/_ost_gui.dir/export_file_loader.cc.o.d -o CMakeFiles/_ost_gui.dir/export_file_loader.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_file_loader.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o -MF CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o.d -o CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_file_viewer.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-2.3.1/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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_widget.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_widget.cc.o -MF CMakeFiles/_ost_gui.dir/export_widget.cc.o.d -o CMakeFiles/_ost_gui.dir/export_widget.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_widget.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:24, from /build/openstructure-2.3.1/modules/gui/pymod/export_file_loader.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o -MF CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o.d -o CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_gl_canvas.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-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o -MF CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o.d -o CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/data_viewer_proxy.cc /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/openstructure-2.3.1/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( | ^~~~~~~~~~~~~~~~~~~~ [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o -MF CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o.d -o CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_data_viewer.cc /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/openstructure-2.3.1/modules/gui/pymod/sip_handler.hh:22, from /build/openstructure-2.3.1/modules/gui/pymod/data_viewer_proxy.hh:30, from /build/openstructure-2.3.1/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 /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:30, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/gl_canvas.hh:23, from /build/openstructure-2.3.1/modules/gui/pymod/export_gl_canvas.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:37:22: warning: 'Qt::MidButton' is deprecated: MidButton is deprecated. Use MiddleButton instead [-Wdeprecated-declarations] 37 | MiddleButton=Qt::MidButton | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qpoint.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QPoint:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qnamespace.h:132:9: note: declared here 132 | MidButton Q_DECL_ENUMERATOR_DEPRECATED_X("MidButton is deprecated. Use MiddleButton instead") = MiddleButton, | ^~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/modules/gui/pymod/data_viewer_proxy.hh:35: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh:37, from /build/openstructure-2.3.1/modules/gui/pymod/data_viewer_proxy.hh:41: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/qtguiglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qtwidgetsglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qwidget.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QWidget:1, from /build/openstructure-2.3.1/modules/gui/pymod/sip_handler.hh:24: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qflags.h:123:80: note: declared here 123 | QT_DEPRECATED_X("Use default constructor instead") Q_DECL_CONSTEXPR inline QFlags(Zero) noexcept : i(0) {} | ^~~~~~ [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay.cc.o -MF CMakeFiles/_ost_gui.dir/export_overlay.cc.o.d -o CMakeFiles/_ost_gui.dir/export_overlay.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_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-2.3.1/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.11 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o -MF CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o.d -o CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o -c /build/openstructure-2.3.1/modules/gui/pymod/export_overlay_manager.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh:33, from /build/openstructure-2.3.1/modules/gui/pymod/export_data_viewer.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh:37: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:46:55: warning: 'constexpr QFlags::QFlags(Zero) [with Enum = Qt::WindowType; 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/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:1305, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/qtguiglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qtwidgetsglobal.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qmainwindow.h:43, from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QMainWindow:1, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/main_window.hh:35: /usr/include/arm-linux-gnueabihf/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-2.3.1/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 /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp: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-2.3.1/modules/gui/pymod/export_overlay_manager.cc:16: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point_list.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay.hh:28, from /build/openstructure-2.3.1/modules/gui/pymod/export_overlay.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /usr/include/c++/12/math.h:36, from /usr/include/python3.11/pyport.h:218, from /usr/include/python3.11/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [100%] Linking CXX shared module ../../../stage/lib/python3.11/dist-packages/ost/gui/_ost_gui.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/presets.xml /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/presets.xml cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/icons/color_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/icons/color_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/icons/preset_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/icons/preset_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/icons/render_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/icons/render_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/pymod/scene/icons/tool_icon.png /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/icons/tool_icon.png cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_gui.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro -shared -o ../../../stage/lib/python3.11/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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_gui.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libpython3.11.so /usr/lib/arm-linux-gnueabihf/libboost_python311.so ../../../stage/lib/libost_gfx.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so ../../../stage/lib/libost_io.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so ../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img_alg.so.2.3.1 ../../../stage/lib/libost_img.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../stage/lib/libost_seq.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/color_options_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/color_options_widget.pyc\",\"color_options_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/color_select_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/color_select_widget.pyc\",\"color_select_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/combo_options_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/combo_options_widget.pyc\",\"combo_options_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/cpk_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/cpk_widget.pyc\",\"cpk_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/custom_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/custom_widget.pyc\",\"custom_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/gradient_editor_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/gradient_editor_widget.pyc\",\"gradient_editor_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/gradient_info_handler.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/gradient_info_handler.pyc\",\"gradient_info_handler.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/gradient_list_model.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/gradient_list_model.pyc\",\"gradient_list_model.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/gradient_preset_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/gradient_preset_widget.pyc\",\"gradient_preset_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/hsc_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/hsc_widget.pyc\",\"hsc_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/immutable_gradient_info_handler.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/immutable_gradient_info_handler.pyc\",\"immutable_gradient_info_handler.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/immutable_preset_info_handler.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/immutable_preset_info_handler.pyc\",\"immutable_preset_info_handler.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/init_inspector.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/init_inspector.pyc\",\"init_inspector.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/inspector_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/inspector_widget.pyc\",\"inspector_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/map_level_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/map_level_widget.pyc\",\"map_level_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/preset.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset.pyc\",\"preset.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/remote.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/remote.pyc\",\"remote.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/preset_editor_list_model.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_editor_list_model.pyc\",\"preset_editor_list_model.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/preset_editor_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_editor_widget.pyc\",\"preset_editor_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/preset_info_handler.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_info_handler.pyc\",\"preset_info_handler.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/preset_list_model.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_list_model.pyc\",\"preset_list_model.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/preset_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/preset_widget.pyc\",\"preset_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/render_mode_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/render_mode_widget.pyc\",\"render_mode_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/render_op.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/render_op.pyc\",\"render_op.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/render_options_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/render_options_widget.pyc\",\"render_options_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/scene_observer_impl.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/scene_observer_impl.pyc\",\"scene_observer_impl.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/scene_selection_helper.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/scene_selection_helper.pyc\",\"scene_selection_helper.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/simple_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/simple_widget.pyc\",\"simple_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/sline_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/sline_widget.pyc\",\"sline_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/toolbar_options_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/toolbar_options_widget.pyc\",\"toolbar_options_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/trace_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/trace_widget.pyc\",\"trace_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/tube_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/tube_widget.pyc\",\"tube_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/uniform_color_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/uniform_color_widget.pyc\",\"uniform_color_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/visibility_op.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/visibility_op.pyc\",\"visibility_op.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/line_trace_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/line_trace_widget.pyc\",\"line_trace_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/wireframe_widget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/wireframe_widget.pyc\",\"wireframe_widget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/scene/query_editor.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/scene/query_editor.pyc\",\"query_editor.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/dng/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/dng/termuse.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/termuse.pyc\",\"termuse.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/dng/superpositiondialog.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/superpositiondialog.pyc\",\"superpositiondialog.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/dng/init.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/init.pyc\",\"init.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/dng/menu.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/dng/menu.pyc\",\"menu.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/__init__.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/init_context_menu.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./init_context_menu.pyc\",\"init_context_menu.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/init_menubar.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./init_menubar.pyc\",\"init_menubar.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/init_spacenav.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./init_spacenav.pyc\",\"init_spacenav.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/init_splash.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./init_splash.pyc\",\"init_splash.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/trajectory_viewer.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./trajectory_viewer.pyc\",\"trajectory_viewer.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/helpwidget.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./helpwidget.pyc\",\"helpwidget.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/table.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./table.pyc\",\"table.py\",doraise=True)" cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/build/openstructure-2.3.1/modules/gui/pymod/gosty_startup.py\",\"/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/gui/./gosty_startup.pyc\",\"gosty_startup.py\",doraise=True)" make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/ost_scripts.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.dir/build make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost_config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec/ost_config cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/bin/ost cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different dng /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/bin/dng cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost_startup.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/ost_startup.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/scripts/dng_startup.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/dng_startup.py make[3]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [100%] Built target ost_scripts make[2]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' dh_auto_test cd obj-arm-linux-gnueabihf && make -j3 check ARGS\+=--verbose ARGS\+=-j3 make[1]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/openstructure-2.3.1 -B/build/openstructure-2.3.1/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 check make[2]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/openstructure-2.3.1 -B/build/openstructure-2.3.1/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/CMakeFiles 94 make -f CMakeFiles/Makefile2 CMakeFiles/check.dir/all make[3]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost_startup.py.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/create_stage.dir/DependInfo.cmake --color= make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost_config.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.3.1/scripts/ost_startup.py.in -DOUT_FILE=ost_startup.py -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.11.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.11/dist-packages/ -P /build/openstructure-2.3.1/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]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.3.1/scripts/ost_config.in -DOUT_FILE=ost_config -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.11.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.11/dist-packages/ -P /build/openstructure-2.3.1/cmake_support/substitute.cmake make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/bin [ 0%] Built target subst_ost_startup.py make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec [ 0%] Built target subst_ost_config make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_dng.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.3.1/scripts/ost.in -DOUT_FILE=ost -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.11.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.11/dist-packages/ -P /build/openstructure-2.3.1/cmake_support/substitute.cmake make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/build/openstructure-2.3.1/scripts/dng.in -DOUT_FILE=dng -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.11.2 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.11/dist-packages/ -P /build/openstructure-2.3.1/cmake_support/substitute.cmake make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 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[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/DependInfo.cmake --color= [ 0%] Built target subst_ost make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend [ 0%] Built target subst_dng make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config/CMakeFiles/ost_config_headers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./alignment_opts.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./alignment_opts.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/config/./base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./base.hh 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/export_helper/vector.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/export_helper/vector.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./clip_alignment.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./clip_alignment.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/config/./config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./def.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./def.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/config/./dllexport.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./dllexport.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./conservation.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./conservation.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./exc.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./exc.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/config/./version.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./version.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./contact_prediction_score.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./contact_prediction_score.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./geom.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./geom.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./mat.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./contact_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./contact_weight_matrix.hh [ 0%] Built target ost_config_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/ost_base_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./distance_map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./distance_map.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./mat2.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat2.hh 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/export_helper/generic_property_def.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/generic_property_def.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./entropy.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./entropy.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./mat3.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat3.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/export_helper/pair_to_tuple_conv.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/pair_to_tuple_conv.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./global_align.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./global_align.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/export_helper/vec_to_list_conv.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/vec_to_list_conv.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./mat4.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat4.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./ins_del.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./ins_del.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/test_utils/compare_files.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/test_utils/compare_files.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./local_align.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./local_align.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./generic_property.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./generic_property.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec2.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec2.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./merge_pairwise_alignments.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./merge_pairwise_alignments.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./integrity_error.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./integrity_error.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec3.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec3.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./invalid_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./invalid_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec4.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec4.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./ptr_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./ptr_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./pair_subst_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./pair_subst_weight_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vecmat_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./log.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./log.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./semiglobal_align.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./semiglobal_align.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vecmat2_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat2_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./log_sink.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./log_sink.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./sequence_identity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./sequence_identity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vecmat3_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat3_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./profile.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./profile.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vecmat4_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat4_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./sequence_similarity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./sequence_similarity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./dyn_cast.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./dyn_cast.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./circular_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./circular_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./subst_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./subst_weight_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./stdint.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./stdint.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./constants.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./constants.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./stdint_msc.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./stdint_msc.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./variance_map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./variance_map.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite2.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite2.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./range.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./range.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./data/default_contact_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./default_contact_weight_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite3.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite3.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./data/default_pair_subst_weight_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./default_pair_subst_weight_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./units.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./units.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./message.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./message.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite2_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite2_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./hmm_pseudo_counts.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./hmm_pseudo_counts.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./platform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./platform.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./composite3_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite3_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/alg/src/./hmm_score.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./hmm_score.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./string_ref.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./string_ref.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./aligned_cuboid.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./aligned_cuboid.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./pod_vector.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./pod_vector.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./vec_mat_predicates.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec_mat_predicates.hh [ 0%] Built target ost_seq_alg_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/info/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src/CMakeFiles/ost_info_headers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./fixed_string.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./fixed_string.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./quat.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./quat.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_error.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_error.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./tri_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./tri_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./transform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./transform.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./boost_filesystem_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./boost_filesystem_helper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./point_cloud.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./point_cloud.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/geom/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/base/src/./paged_array.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/./paged_array.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_group.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_group.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 0%] Built target ost_base_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_item.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_item.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_fw.hh [ 0%] Built target ost_geom_headers make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./module_config.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/pointer_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_path.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_path.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_set.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_set.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_group.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_group.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_visitor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_prop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_prop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./info_verbose_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_verbose_visitor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_list_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./item_type.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./item_type.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_list_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./geom_info_conversion.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./geom_info_conversion.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/atom_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/impl/sequence_list_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/info/src/./item_type_cast.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/info/./item_type_cast.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./sequence_list.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_list.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/chain_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./sequence_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_handle.hh [ 0%] Built target ost_info_headers cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/chain_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl_fw.hh make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/ost_conop_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./alignment_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./alignment_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/connector_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./conop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./conop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/connector_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./processor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./processor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/dihedral.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/dihedral.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./sequence_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./amino_acids.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./amino_acids.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./aligned_region.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_region.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/entity_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./diag.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./diag.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./aligned_column.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_column.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/fragment_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/fragment_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./model_check.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./model_check.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./aligned_column_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_column_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/fragment_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/fragment_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./invalid_sequence.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./invalid_sequence.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./heuristic.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./heuristic.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/query_ast.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_ast.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./views_from_sequences.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./views_from_sequences.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./compound.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/query_ast_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_ast_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/seq/base/src/./profile_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/./profile_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/query_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./compound_lib.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound_lib.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 0%] Built target ost_seq_headers make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/query_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./module_config.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/db/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src/CMakeFiles/ost_db_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./rule_based.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./rule_based.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/residue_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./sqlite_wrap.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./sqlite_wrap.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/residue_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./minimal_compound_lib.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./minimal_compound_lib.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./sqlite_conv.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./sqlite_conv.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./compound_lib_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound_lib_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/surface_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/surface_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/surface_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/surface_impl_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/conop/src/./ring_finder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/./ring_finder.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./linear_indexer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./linear_indexer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/torsion_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./binary_container.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./binary_container.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/impl/torsion_impl_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl_fw.hh [ 0%] Built target ost_conop_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/db/src/./extract_data_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/db/./extract_data_helper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./atom_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_base.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./atom_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_handle.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen.hh [ 0%] Built target ost_db_headers make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src/CMakeFiles/ost_img_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_s.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen_s.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./atom_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_view.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/raster_image/raster_image.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/raster_image/raster_image.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_gen_s.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen_s.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./bond_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bond_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_iso_spec.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_spec.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/dispatch.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/dispatch.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./bond_table.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bond_table.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/map_octree.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_octree.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chain_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/octree_isocont.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/octree_isocont.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chain_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chain_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_view.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/cartoon_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/cartoon_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chain_type.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_type.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_base_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_base_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/custom_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/custom_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chem_class.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chem_class.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/cpk_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/cpk_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_def.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/debug_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/debug_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./chem_type.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chem_type.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_factory.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_factory.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/simple_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/simple_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./coord_group.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_group.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_frequency_domain.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_frequency_domain.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/sline_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/sline_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./coord_source.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_source.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_half_frequency_domain.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_half_frequency_domain.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/trace_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./in_mem_coord_source.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./in_mem_coord_source.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/line_trace_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/line_trace_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./coord_frame.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_frame.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_spatial_domain.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_spatial_domain.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/backbone_trace.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/backbone_trace.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./editor_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./editor_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_visitor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/entity_detail.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_detail.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/entity_renderer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_algorithm.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_algorithm.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./editor_type_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./editor_type_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/trace_renderer_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/image_state_visitor_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_visitor_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./mol.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./mol.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/index.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/index.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/connect_renderer_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/connect_renderer_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/type_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/type_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/mapped_property.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/mapped_property.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/image_state/value_holder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/value_holder.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/entity_renderer_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./algorithm.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./algorithm.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/tabulated_trig.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/tabulated_trig.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./circle_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./circle_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./composite_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./composite_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/impl/fast_spheres.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/fast_spheres.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_observer_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_observer_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./data_algorithm.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_algorithm.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_property_mapper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_property_mapper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/line_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/line_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./data_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_view.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/custom_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/custom_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./data_types.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_types.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_visitor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/cpk_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/cpk_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./data.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./data.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./entity_visitor_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_visitor_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/simple_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/simple_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./handle_type_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./handle_type_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./debug.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./debug.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./ics_editor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./ics_editor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/sline_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/sline_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./dllexport.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./dllexport.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./not_connected_error.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./not_connected_error.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/line_trace_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/line_trace_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./extent_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./property_id.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./property_id.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/cartoon_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/cartoon_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./extent_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./query.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./extent.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/render_options/trace_render_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/trace_render_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_factory.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_factory.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./query_error.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_error.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_element_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/by_element_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./query_state.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_state.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/by_chain_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/by_chain_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_handle_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_handle_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./residue_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/uniform_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/uniform_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./residue_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/gradient_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/gradient_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./residue_prop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_prop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/entity_view_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/entity_view_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_list.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_list.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./residue_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_view.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_state_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_state_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/basic_gradient_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/basic_gradient_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./sec_structure.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./sec_structure.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image_state.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_state.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./spatial_organizer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./spatial_organizer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/gradient_level_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/gradient_level_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./image.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./image.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./surface.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/color_ops/map_handle_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/map_handle_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./inverted_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./inverted_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./surface_builder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_builder.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./render_pass.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./render_pass.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./map.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./builder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./builder.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./bitmap_io.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./bitmap_io.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_base_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_base_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./surface_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./collada_exporter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./collada_exporter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./surface_prop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_prop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./color.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./color.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./torsion_handle.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./torsion_handle.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./entity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_visitor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./transfer_connectivity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./transfer_connectivity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./entity_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./entity_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./query_view_wrapper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_view_wrapper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./view_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gl_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gl_helper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./view_type_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_type_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./normalizer_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./normalizer_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./view_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./normalizer_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./normalizer_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./xcs_editor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./xcs_editor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./null_data.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./null_data.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_node_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./bounding_box.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bounding_box.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./observable.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./observable.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./transform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./transform.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_node_visitor.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node_visitor.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/base/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./paste_impl.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./paste_impl.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_object_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object_base.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./peak.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./peak.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object.hh [ 0%] Built target ost_mol_headers make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./phase.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./phase.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_object_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./physical_units.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./physical_units.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./anisotropic.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./anisotropic.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./pixel_sampling.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./pixel_sampling.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_prim.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_prim.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./symmetry_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./symmetry_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./auto_correlate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./auto_correlate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./point_list.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./point_list.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./point.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./point.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gfx_test_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_test_object.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./clear.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./clear.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./polygon_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./polygon_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./clip_min_max.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./clip_min_max.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./glwin_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./glwin_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./progress.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./progress.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./conjugate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./conjugate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./input.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./input.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./size.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./size.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./prim_list.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./prim_list.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./convolute.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./convolute.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./spherical_mask.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./spherical_mask.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./correlate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./correlate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./util.cc /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./util.cc cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./scene.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./scene.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./cross_correlate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./cross_correlate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./selection.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./selection.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./value_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./value_util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./density_slice.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./density_slice.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./surface.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./surface.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./vecmat.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./vecmat.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./dft.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./dft.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./texture.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./texture.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fft.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fft.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/base/src/./mask_info_convert.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_info_convert.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./vertex_array.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./vertex_array.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fftw_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fftw_helper.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./vertex_array_helper.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./vertex_array_helper.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fill.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fill.hh [ 0%] Built target ost_img_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/ost_gui_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./scene_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./scene_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./filter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./filter.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gl_include.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gl_include.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fourier_filters.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fourier_filters.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_option_group.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_option_group.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./glext_include.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./glext_include.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./gaussian_gradient_magnitude.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian_gradient_magnitude.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_options.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./render_mode.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./render_mode.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./gaussian.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./material.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./material.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./gaussian_laplacian.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian_laplacian.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/selection_tool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/selection_tool.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gradient.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gradient.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./highest_peak_search_3d.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./highest_peak_search_3d.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/measure_tool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/measure_tool.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gradient_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gradient_manager.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./histogram.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./histogram.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_option.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_option.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./line_iterator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./line_iterator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_manager.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./primitives.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./primitives.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./local_sigma_threshold.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./local_sigma_threshold.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_options_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./povray_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./povray_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./mask_image.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./mask_image.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/manipulator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/manipulator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./povray.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./povray.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./negate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./negate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/tool_options_win.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_win.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./exporter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./exporter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/mouse_event.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./normalizer_factory.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./normalizer_factory.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./exporter_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./exporter_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/tools/map_tool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/map_tool.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./norm.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./gost_exporter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gost_exporter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./normalizer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./normalizer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/align_properties_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/align_properties_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./norm_linear.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_linear.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_row.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/base_row.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./color_ops/map_handle_color_op.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_handle_color_op.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/background_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/background_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./norm_log.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_log.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./map_iso.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_iso.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/conservation_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/conservation_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./map_slab.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_slab.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./norm_od.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_od.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gfx/src/./map_iso_prop.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_iso_prop.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./power_spectrum.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./power_spectrum.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/secstr_row.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/secstr_row.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./randomize.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./randomize.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_secstr_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_secstr_painter.hh [ 0%] Built target ost_gfx_headers make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src/CMakeFiles/ost_io_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./smooth_mask_image.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./smooth_mask_image.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_selection_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_selection_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./stat.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/chemdict_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/seq_text_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_text_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./stat_accumulator.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat_accumulator.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/star_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/star_parser.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./stat_min_max.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat_min_max.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_delegate.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_delegate.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/mmcif_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./threshold.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./threshold.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_model.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_model.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transcendentals.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transcendentals.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/mmcif_info.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_info.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_row.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_row.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transform.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/io_profile.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/io_profile.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_search_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_search_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transform_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transform_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/dcd_io.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/dcd_io.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_table_view.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_table_view.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./alg_transform.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_transform.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_crd_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_crd_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./alg_mirror.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_mirror.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_viewer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./alg_shift.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_shift.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pqr_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_pqr_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/tick_painter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/tick_painter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./discrete_shrink.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./discrete_shrink.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mae_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_mae_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/title_row.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/title_row.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_mmcif_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_mmcif_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/alignment_view_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/alignment_view_object.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transformation_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transformation_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./transformations.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transformations.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/base_view_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/base_view_object.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/pdb_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/sequence_viewer/sequence_view_object.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_view_object.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_pdb_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_pdb_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./fractional_shift.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fractional_shift.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/main_thread_runner.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/main_thread_runner.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/pdb_writer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_writer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/output_redirector.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/entity_io_sdf_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_sdf_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./polar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./polar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/completer_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/completer_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/sdf_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./line_average.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./line_average.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/sdf_writer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_writer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/dir_model.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/dir_model.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/img/alg/src/./rscrosscorr.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./rscrosscorr.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/save_entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/save_entity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/gutter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/gutter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/load_entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/load_entity.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/path_completer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/path_completer.hh [ 0%] Built target ost_img_alg_headers 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 make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/surface_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/surface_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_context_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_context_parser.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./svd_superpose.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./svd_superpose.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/load_surface.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/load_surface.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_completer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_completer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./sec_structure_segments.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./sec_structure_segments.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/surface_io_msms_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/surface_io_msms_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/pdb_str.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_str.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./local_dist_diff_test.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./local_dist_diff_test.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./distance_test_common.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./distance_test_common.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./distance_rmsd_test.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./distance_rmsd_test.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/stereochemical_params_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/stereochemical_params_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./superpose_frames.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./superpose_frames.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_tokenizer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_tokenizer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/mol/omf.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/omf.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./filter_clashes.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./filter_clashes.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/load_map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/load_map.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_syntax_highlighter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_syntax_highlighter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./construct_cbeta.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./construct_cbeta.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_df3_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_df3_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/text_logger.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./clash_score.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./clash_score.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/image_format.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/image_format.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_interpreter_worker.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./trajectory_analysis.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./trajectory_analysis.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_dx_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dx_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/python_shell_text_document_layout.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_text_document_layout.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./structure_analysis.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./structure_analysis.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_spi_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_spi_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/shell_history.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/shell_history.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./consistency_checks.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./consistency_checks.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_situs_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_situs_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/state_machine.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/state_machine.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./pdbize.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./pdbize.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./adjacency_bitmap.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./adjacency_bitmap.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/state.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/state.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_mrc_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_mrc_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./consistency_checks.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./consistency_checks.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_dat_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dat_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/transition.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/transition.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./contact_overlap.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./contact_overlap.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_ipl_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_ipl_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/python_shell/transition_guard.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/transition_guard.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./domain_find.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./domain_find.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/button_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/button_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_jpk_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_jpk_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./similarity_matrix.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./similarity_matrix.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/drop_box.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/drop_box.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_nanoscope_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_nanoscope_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./accessibility.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./accessibility.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/panel_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_png_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_png_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./sec_struct.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./sec_struct.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/panel_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_manager.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_dm3_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dm3_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/bottom_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/bottom_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/map_io_tiff_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_tiff_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./nonstandard.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./nonstandard.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/button_box.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/button_box.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./molck.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./molck.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/tiff_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/tiff_util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/event_button.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/event_button.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./find_membrane.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./find_membrane.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/img/jpk_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/jpk_util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/panel_widget_container.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_widget_container.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/sequence_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/mol/alg/src/./entity_to_density.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./entity_to_density.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/panel_bar_widget_holder.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_bar_widget_holder.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/side_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/side_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/fasta_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/fasta_io_handler.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/splitter_panel_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/splitter_panel_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/pir_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pir_io_handler.hh [ 0%] Built target ost_mol_alg_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/panels/tabbed_panel_bar.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/tabbed_panel_bar.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/promod_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/promod_io_handler.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/bindings/src/./wrap_tmalign.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/bindings/./wrap_tmalign.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/context_menu.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/context_menu.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/profile_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/profile_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/hhm_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/hhm_io_handler.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/current_selection_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/current_selection_node.hh [ 0%] Built target ost_bindings_headers make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/config/CMakeFiles/ost_config.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/pssm_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pssm_io_handler.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/config/CMakeFiles/ost_config.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/custom_part_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/custom_part_node.hh [ 0%] Built target ost_config make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/clustal_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/clustal_io_handler.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/src/CMakeFiles/ost_geom.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/entity_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/entity_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/load.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/load.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/entity_part_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/entity_part_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/seq/save.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/save.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/gfx_scene_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/gfx_scene_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./binary_data_sink.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./binary_data_sink.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./io_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_manager.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/label_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/label_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./binary_data_source.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./binary_data_source.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/root_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/root_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./container_serialization.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./container_serialization.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./swap_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./swap_util.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/render_mode_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/render_mode_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./io_utils.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_utils.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./io_exception.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_exception.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./convert.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./convert.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/render_modes_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/render_modes_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./converting_streams.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./converting_streams.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_node.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_node.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./formatted_line.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./formatted_line.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/chemdict_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./chemdict_parser.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/star_parser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./star_parser.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/scene_win/scene_win_model.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/mmcif_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/messages/message_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/message_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/mmcif_info.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_info.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/messages/message_box_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/message_box_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/io_profile.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_profile.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/geom/src/CMakeFiles/ost_geom.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/messages/log_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/log_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/dcd_io.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./dcd_io.hh [ 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[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/ost_base.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/argand.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/argand.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_crd_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_crd_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer_panel.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_pqr_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_pqr_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/data_viewer_panel_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer_panel_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_mae_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_mae_handler.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/draw_overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/draw_overlay.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/base/src/CMakeFiles/ost_base.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_mmcif_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_mmcif_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/drawing_functions.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/drawing_functions.hh [ 2%] Built target ost_base make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_handler.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/pymod/CMakeFiles/_ost_geom.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/fft_panel.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/fft_panel.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/pdb_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/info_panel.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/info_panel.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_pdb_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_pdb_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/img2qt.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/img2qt.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/pdb_writer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_writer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/mask_overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/mask_overlay.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/entity_io_sdf_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_sdf_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/null_overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/null_overlay.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/sdf_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_reader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/sdf_writer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_writer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/save_entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./save_entity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_base_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_base_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/load_entity.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_entity.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/surface_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./surface_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/load_surface.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_surface.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/surface_io_msms_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./surface_io_msms_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager_gui.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_gui.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/pdb_str.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_str.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/overlay_manager_observer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_observer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/stereochemical_params_reader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./stereochemical_params_reader.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./mol/omf.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./omf.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/sequence_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./sequence_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/pointlist_overlay_base.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay_base.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/strategies.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/strategies.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/fasta_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./fasta_io_handler.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/geom/pymod/CMakeFiles/_ost_geom.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/strategies_fw.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/strategies_fw.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/pir_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pir_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/data_viewer/viewer_normalizer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/viewer_normalizer.hh [ 3%] Built target _ost_geom make -f modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests.dir/depend cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/promod_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./promod_io_handler.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests/CMakeFiles/ost_geom_tests.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./file_browser.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_browser.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/profile_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./profile_io_handler.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./file_type_dialog.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_type_dialog.hh make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 3%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/hhm_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./hhm_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./file_viewer.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_viewer.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_composite3.cc cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./gl_canvas.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gl_canvas.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/pssm_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./pssm_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./gl_win.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gl_win.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/clustal_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./clustal_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./scene_menu.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./scene_menu.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/load.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./load.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./seq/save.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./save.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./gosty_app.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gosty_app.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/load_map.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_map.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./admin.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./admin.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_df3_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_df3_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./module_config.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./module_config.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/image_format.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./image_format.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./main.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_dx_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dx_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./main_area.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main_area.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_spi_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_spi_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_situs_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_situs_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./perspective.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./perspective.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./scene_selection.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./scene_selection.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./main_window.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main_window.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_mrc_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_mrc_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./dock_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./dock_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./dock_widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./dock_widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_dat_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dat_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./thin_splitter.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./thin_splitter.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_ipl_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_ipl_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_jpk_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_jpk_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget_geom_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_geom_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_nanoscope_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_nanoscope_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget_pool.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_pool.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_png_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_png_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget_registry.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_registry.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./widget_state_saver.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_state_saver.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_dm3_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dm3_handler.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/gui/src/./file_loader.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_loader.hh cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/map_io_tiff_handler.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_tiff_handler.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/tiff_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./tiff_util.hh [ 3%] Built target ost_gui_headers 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/info/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/src/CMakeFiles/ost_info.dir/DependInfo.cmake --color= cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/modules/io/src/./img/jpk_util.hh /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/./jpk_util.hh make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 3%] Built target ost_io_headers make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/info/src/CMakeFiles/ost_info.dir/build.make modules/info/src/CMakeFiles/ost_info.dir/build make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/info/src/CMakeFiles/ost_info.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/base/pymod/CMakeFiles/_ost_base.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 4%] 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[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake --color= [ 4%] Built target _ost_base make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/src/CMakeFiles/ost_img.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/img/base/src/CMakeFiles/ost_img.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 7%] Built target ost_img make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/info/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/info/pymod/CMakeFiles/_ost_info.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/info/pymod/CMakeFiles/_ost_info.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 8%] Built target _ost_info make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/src/CMakeFiles/ost_img_alg.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/mol/base/src/CMakeFiles/ost_mol.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 13%] Built target ost_mol make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/pymod/CMakeFiles/_ost_img.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 18%] Built target ost_img_alg make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/img/base/pymod/CMakeFiles/_ost_img.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/ost_base_tests.dir/DependInfo.cmake --color= [ 20%] Built target _ost_img 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]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests/CMakeFiles/ost_img_tests.dir/DependInfo.cmake --color= [ 20%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/tests/CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o -MF CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o.d -o CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o -c /build/openstructure-2.3.1/modules/base/tests/test_generic_property.cc make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 20%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_data.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_data.cc.o -MF CMakeFiles/ost_img_tests.dir/test_data.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_data.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_data.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_composite3.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/modules/geom/tests/test_composite3.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/modules/img/base/tests/test_data.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/img/base/tests/test_data.hh:29, from /build/openstructure-2.3.1/modules/img/base/tests/test_data.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/base/tests/test_generic_property.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/base/tests/test_generic_property.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 20%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_extent.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_extent.cc.o -MF CMakeFiles/ost_img_tests.dir/test_extent.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_extent.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_extent.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/img/base/tests/test_extent.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/base/tests/test_extent.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 20%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_composite2.cc [ 20%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image.cc.o -MF CMakeFiles/ost_img_tests.dir/test_image.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_image.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_image.cc [ 21%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/tests/CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o -MF CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o.d -o CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o -c /build/openstructure-2.3.1/modules/base/tests/test_string_ref.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_composite2.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/base/tests/test_image.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/base/tests/test_image.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 22%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_mat2.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_mat2.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 22%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/tests/CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o -MF CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o.d -o CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o -c /build/openstructure-2.3.1/modules/base/tests/test_pod_vector.cc [ 22%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_mat3.cc [ 22%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state.cc.o -MF CMakeFiles/ost_img_tests.dir/test_image_state.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_image_state.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_image_state.cc [ 22%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/tests/CMakeFiles/ost_base_tests.dir/tests.cc.o -MF CMakeFiles/ost_base_tests.dir/tests.cc.o.d -o CMakeFiles/ost_base_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/base/tests/tests.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_mat3.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /build/openstructure-2.3.1/modules/img/base/tests/test_image_state.cc:32: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/img/base/tests/test_image_state.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 22%] Linking CXX executable ../../../tests/ost_base_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_base_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 22%] Built target ost_base_tests 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 make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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 make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 22%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_clear.cc [ 22%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_mat4.cc [ 22%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o -MF CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_image_state_visitor.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_clear.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_clear.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_mat4.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 22%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_conj.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/base/tests/test_image_state_visitor.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/img/base/tests/test_image_state_visitor.hh:29, from /build/openstructure-2.3.1/modules/img/base/tests/test_image_state_visitor.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 22%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op2.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op2.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_op2.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_op2.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_op2.cc [ 22%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_index.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_index.cc.o -MF CMakeFiles/ost_img_tests.dir/test_index.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_index.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_index.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_conj.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_conj.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_op2.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 22%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_convolute.cc [ 23%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_point.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_point.cc.o -MF CMakeFiles/ost_img_tests.dir/test_point.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_point.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_point.cc [ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op3.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_op3.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_op3.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_op3.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_convolute.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_convolute.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/modules/img/base/tests/test_point.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/img/base/tests/test_point.hh:29, from /build/openstructure-2.3.1/modules/img/base/tests/test_point.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_discrete_shrink.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_op3.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_sampling.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_sampling.cc.o -MF CMakeFiles/ost_img_tests.dir/test_sampling.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_sampling.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_sampling.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/modules/img/base/tests/test_sampling.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/img/base/tests/test_sampling.hh:29, from /build/openstructure-2.3.1/modules/img/base/tests/test_sampling.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_discrete_shrink.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_discrete_shrink.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op4.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op4.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_op4.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_op4.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_op4.cc [ 23%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_domains.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_domains.cc.o -MF CMakeFiles/ost_img_tests.dir/test_domains.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_domains.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_domains.cc [ 24%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_fft.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_op4.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_spatial_domain.hh:31, from /build/openstructure-2.3.1/modules/img/base/tests/test_domains.cc:31: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/istream:38, from /usr/include/c++/12/sstream:38, from /build/openstructure-2.3.1/modules/img/base/tests/test_domains.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /build/openstructure-2.3.1/modules/img/alg/tests/test_fft.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/modules/img/alg/tests/test_fft.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_quat.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_quat.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_quat.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_quat.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_quat.cc [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_size.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_size.cc.o -MF CMakeFiles/ost_img_tests.dir/test_size.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_size.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_size.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_quat.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o -MF CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/test_value_holder.cc [ 24%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_vec2.cc [ 24%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_fill.cc [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/tests.cc.o -MF CMakeFiles/ost_img_tests.dir/tests.cc.o.d -o CMakeFiles/ost_img_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/img/base/tests/tests.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_vec2.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_fill.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_fill.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Linking CXX executable ../../../../tests/ost_img_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../../stage/lib/libost_img_alg.so.2.3.1 ../../../../stage/lib/libost_img.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 24%] Built target ost_img_tests 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 24%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_atom_groups.cc [ 24%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_filter.cc [ 24%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_vec3.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/tests/test_atom_groups.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_atom_groups.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_filter.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/img/alg/tests/test_filter.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_vec3.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_vec4.cc [ 24%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_chain.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_chain.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_chain.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_chain.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_chain.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_vec4.cc:20: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/stdexcept:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/tests/test_chain.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_chain.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_transform.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_transform.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_transform.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_transform.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/test_transform.cc [ 25%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_histogram.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/modules/geom/tests/test_transform.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/geom/tests/test_transform.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/histogram.hh:30, from /build/openstructure-2.3.1/modules/img/alg/tests/test_histogram.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_histogram.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/tests.cc.o -MF CMakeFiles/ost_geom_tests.dir/tests.cc.o.d -o CMakeFiles/ost_geom_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/geom/tests/tests.cc [ 25%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_mirror.cc [ 25%] Linking CXX executable ../../../tests/ost_geom_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_geom_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/src/CMakeFiles/ost_seq.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/seq/base/src/CMakeFiles/ost_seq.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/db/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/src/CMakeFiles/ost_db.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/db/src/CMakeFiles/ost_db.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Built target ost_db make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Built target _ost_img_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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/ost_base_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 29%] running checks for module base cd /build/openstructure-2.3.1/modules/base/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_base_tests Running 5 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Built target ost_base_tests_run 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/src/CMakeFiles/ost_bindings.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/bindings/src/CMakeFiles/ost_bindings.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 29%] running checks for module geom cd /build/openstructure-2.3.1/modules/geom/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_geom_tests Running 25 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Built target ost_geom_tests_run make -f modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 29%] running checks for module img cd /build/openstructure-2.3.1/modules/img/base/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_img_tests Running 44 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Built target ost_img_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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 29%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o -c /build/openstructure-2.3.1/modules/seq/base/tests/test_sequence.cc In file included from /usr/include/c++/12/string:53: In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void mol_base::throw_invalid_chain_handle::test_method()' at /build/openstructure-2.3.1/modules/mol/base/tests/test_chain.cc:114:18: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:30: /usr/include/boost/variant/variant.hpp: In member function 'void mol_base::throw_invalid_chain_handle::test_method()': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void mol_base::throw_invalid_chain_handle::test_method()' at /build/openstructure-2.3.1/modules/mol/base/tests/test_chain.cc:114:18: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function 'void mol_base::throw_invalid_chain_handle::test_method()': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void mol_base::throw_invalid_chain_handle::test_method()' at /build/openstructure-2.3.1/modules/mol/base/tests/test_chain.cc:114:18: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function 'void mol_base::throw_invalid_chain_handle::test_method()': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In member function 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/12/bits/basic_string.h:891:15, inlined from 'void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]' at /usr/include/boost/variant/variant.hpp:597:21, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]' at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from 'typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]' at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from 'static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2337:48, inlined from 'typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2349:43, inlined from 'void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2081:41, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2108:27, inlined from 'void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2095:10, inlined from 'typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]' at /usr/include/boost/variant/variant.hpp:2159:15, inlined from 'void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]' at /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from 'void mol_base::throw_invalid_chain_handle::test_method()' at /build/openstructure-2.3.1/modules/mol/base/tests/test_chain.cc:114:18: /usr/include/c++/12/bits/basic_string.h:1071:16: warning: '((const __vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]' may be used uninitialized [-Wmaybe-uninitialized] 1071 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function 'void mol_base::throw_invalid_chain_handle::test_method()': /usr/include/boost/variant/variant.hpp:2107:21: note: 'temp' declared here 2107 | variant temp(rhs); | ^~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_mirror.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_mirror.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_conn.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_conn.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_conn.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_conn.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_conn.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/seq/base/tests/test_sequence.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/seq/base/tests/test_sequence.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_negate.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/tests/test_conn.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_conn.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_negate.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_negate.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_coord_group.cc [ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_power_spectrum.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/tests/test_coord_group.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_coord_group.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_power_spectrum.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_power_spectrum.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o -c /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_column.cc [ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_shift.cc [ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_builder.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_builder.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_builder.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_builder.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_builder.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_column.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_column.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_column.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_column.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_shift.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/builder.hh:26, from /build/openstructure-2.3.1/modules/mol/base/tests/test_builder.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/builder.hh:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_stat.cc [ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_delete.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_delete.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_delete.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_delete.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_delete.cc [ 29%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o -c /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_region.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_stat.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_stat.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_region.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_region.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_region.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /build/openstructure-2.3.1/modules/seq/base/tests/test_aligned_region.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_delete.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_entity.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_entity.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_entity.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_entity.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_entity.cc [ 29%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_transform.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec_mat_predicates.hh:28, from /build/openstructure-2.3.1/modules/mol/base/tests/test_entity.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_entity.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/modules/img/alg/tests/test_transform.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_transform.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/modules/mol/base/tests/test_entity.cc: In member function 'void mol_base::minmax::test_method()': /build/openstructure-2.3.1/modules/mol/base/tests/test_entity.cc:438:66: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 438 | std::pair minmax = ev.GetMinMax("test", Prop::ATOM); | ^ [ 29%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o -c /build/openstructure-2.3.1/modules/seq/base/tests/test_alignment.cc [ 30%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/test_normalizer.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/seq/base/tests/test_alignment.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/seq/base/tests/test_alignment.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/modules/seq/base/tests/test_alignment.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /build/openstructure-2.3.1/modules/seq/base/tests/test_alignment.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/openstructure-2.3.1/modules/img/alg/tests/test_normalizer.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/tests.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/img/alg/tests/tests.cc [ 30%] Linking CXX executable ../../../../tests/ost_img_alg_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img_alg_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-z,relro CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -o ../../../../tests/ost_img_alg_tests -L/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../../stage/lib/libost_img_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 30%] Built target ost_img_alg_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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 32%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 32%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/ost_conop.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/conop/src/CMakeFiles/ost_conop.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 34%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/db/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/pymod/CMakeFiles/_ost_db.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/db/pymod/CMakeFiles/_ost_db.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 35%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 37%] Built target ost_mol_alg 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 37%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests/CMakeFiles/ost_conop_tests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 38%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o -MF CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o.d -o CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o -c /build/openstructure-2.3.1/modules/conop/tests/test_amino_acids.cc [ 38%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_profile.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_profile.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_profile.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_profile.cc.o -c /build/openstructure-2.3.1/modules/seq/base/tests/test_profile.cc [ 38%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_ics.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_ics.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_ics.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_ics.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_ics.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:26, from /build/openstructure-2.3.1/modules/conop/tests/test_amino_acids.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/conop/tests/test_amino_acids.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:61:42: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_ics.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/tests.cc.o -MF CMakeFiles/ost_seq_tests.dir/tests.cc.o.d -o CMakeFiles/ost_seq_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/seq/base/tests/tests.cc [ 38%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o -MF CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o.d -o CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o -c /build/openstructure-2.3.1/modules/conop/tests/test_heuristic_conop.cc [ 38%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_query.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_query.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_query.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_query.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_query.cc [ 39%] Linking CXX executable ../../../../tests/ost_seq_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../../stage/lib/libost_seq.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_regex.so ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 39%] Built target ost_seq_tests make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/img/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 39%] running checks for module img_alg cd /build/openstructure-2.3.1/modules/img/alg/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_img_alg_tests In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/conop/tests/test_heuristic_conop.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /build/openstructure-2.3.1/modules/conop/tests/test_heuristic_conop.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ Running 25 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 39%] Built target ost_img_alg_tests_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[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 39%] running checks for module seq cd /build/openstructure-2.3.1/modules/seq/base/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_seq_tests Running 32 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 39%] Built target ost_seq_tests_run 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 39%] Built target _ost_seq_alg make -f modules/gfx/src/CMakeFiles/ost_gfx.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/src/CMakeFiles/ost_gfx.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/gfx/src/CMakeFiles/ost_gfx.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 45%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/pymod/CMakeFiles/_ost_conop.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/conop/pymod/CMakeFiles/_ost_conop.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 46%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/src/CMakeFiles/ost_io.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/build In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/modules/mol/base/tests/test_query.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_query.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/io/src/CMakeFiles/ost_io.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 52%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 54%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 54%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/tests.cc.o -MF CMakeFiles/ost_gfx_tests.dir/tests.cc.o.d -o CMakeFiles/ost_gfx_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/gfx/tests/tests.cc [ 54%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o -MF CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o.d -o CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o -c /build/openstructure-2.3.1/modules/gfx/tests/test_gfx_node.cc [ 54%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/tests.cc.o -MF CMakeFiles/ost_conop_tests.dir/tests.cc.o.d -o CMakeFiles/ost_conop_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/conop/tests/tests.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /build/openstructure-2.3.1/modules/gfx/tests/test_gfx_node.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:26, from /build/openstructure-2.3.1/modules/gfx/tests/test_gfx_node.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 54%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o -MF CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o.d -o CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o -c /build/openstructure-2.3.1/modules/conop/tests/test_rule_based_conop.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/conop/tests/test_rule_based_conop.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/conop/tests/test_rule_based_conop.cc:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 55%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_surface.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_surface.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_surface.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_surface.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_surface.cc [ 56%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_color.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_color.cc.o -MF CMakeFiles/ost_gfx_tests.dir/test_color.cc.o.d -o CMakeFiles/ost_gfx_tests.dir/test_color.cc.o -c /build/openstructure-2.3.1/modules/gfx/tests/test_color.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /build/openstructure-2.3.1/modules/mol/base/tests/test_surface.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_surface.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /build/openstructure-2.3.1/modules/gfx/tests/test_color.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/iterator:61, from /usr/include/boost/operators.hpp:98, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:28: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_residue.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_residue.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_residue.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_residue.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_residue.cc [ 56%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/helper.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/helper.cc.o -MF CMakeFiles/ost_conop_tests.dir/helper.cc.o.d -o CMakeFiles/ost_conop_tests.dir/helper.cc.o -c /build/openstructure-2.3.1/modules/conop/tests/helper.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/tests/test_residue.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_residue.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /build/openstructure-2.3.1/modules/conop/tests/helper.cc:3: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/conop/tests/helper.cc:2: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o -MF CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o.d -o CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o -c /build/openstructure-2.3.1/modules/gfx/tests/test_map_octree.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:38, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_octree.hh:22, from /build/openstructure-2.3.1/modules/gfx/tests/test_map_octree.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:32: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_view.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_view.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_view.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_view.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_view.cc [ 56%] Linking CXX executable ../../../tests/ost_gfx_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_gfx_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../stage/lib/libost_gfx.so.2.3.1 ../../../stage/lib/libost_io.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so ../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img_alg.so.2.3.1 ../../../stage/lib/libost_img.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 56%] Built target ost_gfx_tests 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/ost_io_tests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 56%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_clustal.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_clustal.cc.o -MF CMakeFiles/ost_io_tests.dir/test_clustal.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_clustal.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_clustal.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/tests/test_view.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_view.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/clustal_io_handler.hh:25, from /build/openstructure-2.3.1/modules/io/tests/test_clustal.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_clustal.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_transfer_connectivity.cc [ 56%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_io_pdb.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/builder.hh:26, from /build/openstructure-2.3.1/modules/mol/base/tests/test_transfer_connectivity.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/builder.hh:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec_mat_predicates.hh:28, from /build/openstructure-2.3.1/modules/io/tests/test_io_pdb.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_io_pdb.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Linking CXX executable ../../../tests/ost_conop_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_conop_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 56%] Built target ost_conop_tests 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 56%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o -MF CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o.d -o CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/tests/test_superposition.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /build/openstructure-2.3.1/modules/io/tests/test_io_pdb.cc:33: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/svd_superpose.hh:27, from /build/openstructure-2.3.1/modules/mol/alg/tests/test_superposition.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/specfun.h:45, from /usr/include/c++/12/cmath:1935, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/svd_superpose.hh:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/test_view_op.cc [ 56%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o -MF CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o.d -o CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/tests/tests.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/base/tests/test_view_op.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/base/tests/test_view_op.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o -MF CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o.d -o CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/tests/test_consistency_checks.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/mol/alg/tests/test_consistency_checks.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/mol/alg/tests/test_consistency_checks.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o -MF CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o.d -o CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o -c /build/openstructure-2.3.1/modules/mol/alg/tests/test_partial_sec_struct_assignment.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:25, from /build/openstructure-2.3.1/modules/mol/alg/tests/test_partial_sec_struct_assignment.cc:21: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/vector:60, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:22: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /build/openstructure-2.3.1/modules/mol/alg/tests/test_partial_sec_struct_assignment.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Linking CXX executable ../../../../tests/ost_mol_alg_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol_alg_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../../stage/lib/libost_io.so.2.3.1 ../../../../stage/lib/libost_mol_alg.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../../stage/lib/libost_img_alg.so.2.3.1 ../../../../stage/lib/libost_img.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_conop.so.2.3.1 ../../../../stage/lib/libost_db.so.2.3.1 ../../../../stage/lib/libost_seq.so.2.3.1 ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 56%] Built target ost_mol_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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 56%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o -MF CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o.d -o CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/tests/test_distance_analysis.cc [ 56%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/tests.cc.o -MF CMakeFiles/ost_mol_tests.dir/tests.cc.o.d -o CMakeFiles/ost_mol_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/mol/base/tests/tests.cc [ 56%] Linking CXX executable ../../../../tests/ost_mol_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../../stage/lib/libost_mol.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /build/openstructure-2.3.1/modules/seq/alg/tests/test_distance_analysis.cc:28: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/seq/alg/tests/test_distance_analysis.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/clip_alignment.hh:27, from /build/openstructure-2.3.1/modules/seq/alg/tests/test_distance_analysis.cc:30: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26, from /build/openstructure-2.3.1/modules/seq/alg/tests/test_distance_analysis.cc:34: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function 'std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const': /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 56%] Built target ost_mol_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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 58%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/ost_gui.dir/DependInfo.cmake --color= [ 58%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_io_crd.cc make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/src/CMakeFiles/ost_gui.dir/build.make modules/gui/src/CMakeFiles/ost_gui.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/gui/src/CMakeFiles/ost_gui.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 91%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/pymod/CMakeFiles/_ost_io.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/io/pymod/CMakeFiles/_ost_io.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 91%] Built target _ost_io 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 91%] running checks for module conop cd /build/openstructure-2.3.1/modules/conop/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/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-2.3.1/obj-arm-linux-gnueabihf' [ 91%] Built target ost_conop_tests_run 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 91%] running checks for module gfx cd /build/openstructure-2.3.1/modules/gfx/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_gfx_tests In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/io/tests/test_io_crd.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_io_crd.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 91%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o -MF CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o.d -o CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/tests/test_merge_pairwise_alignments.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/merge_pairwise_alignments.hh:22, from /build/openstructure-2.3.1/modules/seq/alg/tests/test_merge_pairwise_alignments.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/seq/alg/tests/test_merge_pairwise_alignments.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_io_dcd.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_group.hh:29, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/dcd_io.hh:28, from /build/openstructure-2.3.1/modules/io/tests/test_io_dcd.cc:23: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_io_dcd.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o -MF CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o.d -o CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/tests/test_sequence_identity.cc [ 92%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_io_sdf.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/sequence_identity.hh:26, from /build/openstructure-2.3.1/modules/seq/alg/tests/test_sequence_identity.cc:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/seq/alg/tests/test_sequence_identity.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/io/tests/test_io_sdf.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_io_sdf.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -MF CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o.d -o CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/seq/alg/tests/tests.cc [ 93%] Linking CXX executable ../../../../tests/ost_seq_alg_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq_alg_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../../stage/lib/libost_io.so.2.3.1 ../../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../../stage/lib/libost_conop.so.2.3.1 ../../../../stage/lib/libost_db.so.2.3.1 ../../../../stage/lib/libost_seq.so.2.3.1 ../../../../stage/lib/libost_mol.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../../stage/lib/libost_img_alg.so.2.3.1 ../../../../stage/lib/libost_img.so.2.3.1 ../../../../stage/lib/libost_info.so.2.3.1 ../../../../stage/lib/libost_base.so.2.3.1 ../../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 93%] Built target ost_seq_alg_tests 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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 make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 93%] running checks for module mol cd /build/openstructure-2.3.1/modules/mol/base/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_mol_tests Running 70 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 93%] Built target ost_mol_tests_run make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 93%] running checks for module mol_alg cd /build/openstructure-2.3.1/modules/mol/alg/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_mol_alg_tests Running 4 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 93%] Built target ost_mol_alg_tests_run make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 93%] running checks for module seq_alg cd /build/openstructure-2.3.1/modules/seq/alg/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_seq_alg_tests Running 19 test cases... *** No errors detected make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 93%] Built target ost_seq_alg_tests_run make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/_ost_gui.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/gui/pymod/CMakeFiles/_ost_gui.dir/build'. make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target _ost_gui make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts/CMakeFiles/ost_scripts.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost_config /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec/ost_config cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/bin/ost cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different dng /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/bin/dng cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost_startup.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/ost_startup.py cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different /build/openstructure-2.3.1/scripts/dng_startup.py /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages//ost/dng_startup.py make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target ost_scripts make -f modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_aaindex.py cd /build/openstructure-2.3.1/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/seq/alg/tests/test_aaindex.py" . ---------------------------------------------------------------------- Ran 1 test in 0.399s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_aaindex.py_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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/test_stutil.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_stutil.py cd /build/openstructure-2.3.1/modules/base/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/base/tests/test_stutil.py" ...... ---------------------------------------------------------------------- Ran 6 tests in 0.001s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/test_table.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_table.py cd /build/openstructure-2.3.1/modules/base/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/base/tests/test_table.py" [ 95%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_io_sequence_profile.cc ....................................../usr/lib/python3.11/unittest/case.py:579: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/enrichment-out.png'> if method() is not None: ResourceWarning: Enable tracemalloc to get the object allocation traceback .In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/load.hh:27, from /build/openstructure-2.3.1/modules/io/tests/test_io_sequence_profile.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_io_sequence_profile.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./usr/lib/python3.11/unittest/case.py:579: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/roc-out.png'> if method() is not None: ResourceWarning: Enable tracemalloc to get the object allocation traceback ./usr/lib/python3.11/unittest/case.py:579: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/roc-same-val-out.png'> if method() is not None: ResourceWarning: Enable tracemalloc to get the object allocation traceback ................./build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/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 8.649s OK In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_table.py_run 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/test_log.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_log.py cd /build/openstructure-2.3.1/modules/base/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/base/tests/test_log.py" .... ---------------------------------------------------------------------- Ran 4 tests in 0.005s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_log.py_run 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_msms.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_msms.py" Could not find msms executable: ignoring unit tests make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_msms.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_clustalw.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_clustalw.py" ....... ---------------------------------------------------------------------- Ran 7 tests in 4.769s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_clustalw.py_run make -f modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_hhblits.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_hhblits.py" No HHblits installation found: skip unit tests make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_hhblits.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_blast.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_blast.py" Could not find blast executable: ignoring unit tests make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_blast.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_kclust.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_kclust.py" Could not find kClust executable: ignoring unit tests make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_kclust.py_run make -f modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_naccess.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_naccess.py" Could not find NACCESS, could not test binding... make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_naccess.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]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_cadscore.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_cadscore.py" .[ 95%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_pir.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_pir.cc.o -MF CMakeFiles/ost_io_tests.dir/test_pir.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_pir.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_pir.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pir_io_handler.hh:25, from /build/openstructure-2.3.1/modules/io/tests/test_pir.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_pir.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 95%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o -MF CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_iomanager.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /build/openstructure-2.3.1/modules/io/tests/test_iomanager.cc:22: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_iomanager.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 95%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/tests.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/tests.cc.o -MF CMakeFiles/ost_io_tests.dir/tests.cc.o.d -o CMakeFiles/ost_io_tests.dir/tests.cc.o -c /build/openstructure-2.3.1/modules/io/tests/tests.cc [ 95%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o -MF CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_star_parser.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /build/openstructure-2.3.1/modules/io/tests/test_star_parser.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_star_parser.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ . ---------------------------------------------------------------------- Ran 2 tests in 111.959s OK Could not find CAD score classic executables: ignoring unit tests make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_cadscore.py_run 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_tmtools.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_tmtools.py" .. ---------------------------------------------------------------------- Ran 2 tests in 0.185s OK Could not find tmalign executable: ignoring unit tests Could not find tmalign executable: ignoring unit tests make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_tmtools.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 make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_ialign.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_ialign.py" . ---------------------------------------------------------------------- Ran 1 test in 0.109s OK Could not find ialign master perl script: ignoring unit tests make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_ialign.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_lga.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_lga.py" . ---------------------------------------------------------------------- Ran 1 test in 0.113s OK Could not find lga executable: ignoring unit tests make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_lga.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_hbplus.py cd /build/openstructure-2.3.1/modules/bindings/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/bindings/tests/test_hbplus.py" Could not find hbplus, could not test binding... make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_hbplus.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/conop/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/conop/tests/CMakeFiles/test_processor.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 95%] running checks test_processor.py cd /build/openstructure-2.3.1/modules/conop/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/conop/tests/test_processor.py" . ---------------------------------------------------------------------- Ran 1 test in 0.004s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 95%] Built target test_processor.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/db/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 96%] running checks test_linear_db.py cd /build/openstructure-2.3.1/modules/db/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/db/tests/test_linear_db.py" ... ---------------------------------------------------------------------- Ran 3 tests in 0.023s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 96%] Built target test_linear_db.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/geom/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/geom/tests/CMakeFiles/test_geom.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 96%] running checks test_geom.py cd /build/openstructure-2.3.1/modules/geom/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/geom/tests/test_geom.py" ........ ---------------------------------------------------------------------- Ran 8 tests in 0.017s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 96%] Built target test_geom.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/gfx/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 96%] running checks test_gfx.py cd /build/openstructure-2.3.1/modules/gfx/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/gfx/tests/test_gfx.py" ...... ---------------------------------------------------------------------- Ran 6 tests in 0.012s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 96%] Built target test_gfx.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 96%] running checks test_io_pdb.py cd /build/openstructure-2.3.1/modules/io/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/io/tests/test_io_pdb.py" [ 96%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o -MF CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_mmcif_reader.cc ...s ---------------------------------------------------------------------- Ran 4 tests in 0.024s OK (skipped=1) make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 96%] Built target test_io_pdb.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]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_io_mmcif.py cd /build/openstructure-2.3.1/modules/io/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/io/tests/test_io_mmcif.py" .........s ---------------------------------------------------------------------- Ran 10 tests in 6.043s OK (skipped=1) make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target test_io_mmcif.py_run make -f modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' make -f modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/build make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_io_omf.py cd /build/openstructure-2.3.1/modules/io/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/io/tests/test_io_omf.py" . ---------------------------------------------------------------------- Ran 1 test in 3.756s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target test_io_omf.py_run 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_pdbize.py cd /build/openstructure-2.3.1/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/mol/alg/tests/test_pdbize.py" ........ ---------------------------------------------------------------------- Ran 8 tests in 0.042s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target test_pdbize.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_convenient_superpose.py cd /build/openstructure-2.3.1/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/mol/alg/tests/test_convenient_superpose.py" .In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:24, from /build/openstructure-2.3.1/modules/io/tests/test_mmcif_reader.cc:26: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_mmcif_reader.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:25: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ........ ---------------------------------------------------------------------- Ran 9 tests in 16.320s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target test_convenient_superpose.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_hbond.py cd /build/openstructure-2.3.1/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/mol/alg/tests/test_hbond.py" .. ---------------------------------------------------------------------- Ran 2 tests in 0.714s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target test_hbond.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_accessibility.py cd /build/openstructure-2.3.1/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/mol/alg/tests/test_accessibility.py" s. ---------------------------------------------------------------------- Ran 2 tests in 22.826s OK (skipped=1) Could not find NACCESS, could not compare Accessiblity function... make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target test_accessibility.py_run make -f modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_sec_struct.py cd /build/openstructure-2.3.1/modules/mol/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/mol/alg/tests/test_sec_struct.py" s ---------------------------------------------------------------------- Ran 1 test in 0.000s OK (skipped=1) make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_seq.py cd /build/openstructure-2.3.1/modules/seq/base/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/seq/base/tests/test_seq.py" .............. ---------------------------------------------------------------------- Ran 14 tests in 0.015s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target test_seq.py_run make -f modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_renumber.py cd /build/openstructure-2.3.1/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/seq/alg/tests/test_renumber.py" ........ ---------------------------------------------------------------------- Ran 8 tests in 0.388s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target test_renumber.py_run make -f modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/depend make[4]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 97%] running checks test_local_align.py cd /build/openstructure-2.3.1/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/seq/alg/tests/test_local_align.py" ... ---------------------------------------------------------------------- Ran 3 tests in 0.002s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 97%] Built target test_local_align.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 98%] running checks test_global_align.py cd /build/openstructure-2.3.1/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/seq/alg/tests/test_global_align.py" ... ---------------------------------------------------------------------- Ran 3 tests in 0.015s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 98%] Built target test_global_align.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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]: Entering directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 98%] running checks test_semiglobal_align.py cd /build/openstructure-2.3.1/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/seq/alg/tests/test_semiglobal_align.py" . ---------------------------------------------------------------------- Ran 1 test in 0.004s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 98%] Built target test_semiglobal_align.py_run 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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_weight_matrix.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 98%] running checks test_weight_matrix.py cd /build/openstructure-2.3.1/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/seq/alg/tests/test_weight_matrix.py" .. ---------------------------------------------------------------------- Ran 2 tests in 0.001s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 98%] Built target test_weight_matrix.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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [ 98%] running checks test_alignment_from_chain_view.py cd /build/openstructure-2.3.1/modules/seq/alg/tests && sh -c "PYTHONPATH=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib/python3.11/dist-packages/ /usr/bin/python3 /build/openstructure-2.3.1/modules/seq/alg/tests/test_alignment_from_chain_view.py" . ---------------------------------------------------------------------- Ran 1 test in 0.073s OK make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [ 98%] Built target test_alignment_from_chain_view.py_run [ 98%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o -MF CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_mmcif_info.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_info.hh:25, from /build/openstructure-2.3.1/modules/io/tests/test_mmcif_info.cc:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_mmcif_info.cc:21: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 98%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_img.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_img.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_img.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_img.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_io_img.cc [100%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o -MF CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o -c /build/openstructure-2.3.1/modules/io/tests/test_exceptions.cc In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/load_map.hh:24, from /build/openstructure-2.3.1/modules/io/tests/test_io_img.cc:29: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_io_img.cc:20: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/io/img/load_map.hh:24, from /build/openstructure-2.3.1/modules/io/tests/test_exceptions.cc:27: /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tree/observer.hpp:17, from /usr/include/boost/test/unit_test_log.hpp:18, from /usr/include/boost/test/tools/old/impl.hpp:19, from /usr/include/boost/test/test_tools.hpp:46, from /usr/include/boost/test/unit_test.hpp:18, from /build/openstructure-2.3.1/modules/io/tests/test_exceptions.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [100%] Linking CXX executable ../../../tests/ost_io_tests cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_io_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/openstructure-2.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -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-2.3.1/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so ../../../stage/lib/libost_io.so.2.3.1 ../../../stage/lib/libost_mol_alg.so.2.3.1 ../../../stage/lib/libost_conop.so.2.3.1 ../../../stage/lib/libost_db.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so /usr/lib/arm-linux-gnueabihf/libboost_thread.so /usr/lib/arm-linux-gnueabihf/libboost_chrono.so /usr/lib/arm-linux-gnueabihf/libboost_date_time.so /usr/lib/arm-linux-gnueabihf/libboost_atomic.so ../../../stage/lib/libost_seq_alg.so.2.3.1 ../../../stage/lib/libost_seq.so.2.3.1 ../../../stage/lib/libost_mol.so.2.3.1 ../../../stage/lib/libost_img_alg.so.2.3.1 ../../../stage/lib/libost_img.so.2.3.1 ../../../stage/lib/libost_info.so.2.3.1 ../../../stage/lib/libost_base.so.2.3.1 ../../../stage/lib/libost_geom.so.2.3.1 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so /usr/lib/arm-linux-gnueabihf/libboost_system.so /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.8 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so /usr/lib/arm-linux-gnueabihf/libboost_regex.so /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [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-2.3.1/obj-arm-linux-gnueabihf' cd /build/openstructure-2.3.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/openstructure-2.3.1 /build/openstructure-2.3.1/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/ost_io_tests_run.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' 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-2.3.1/obj-arm-linux-gnueabihf' [100%] running checks for module io cd /build/openstructure-2.3.1/modules/io/tests && env OST_ROOT=/build/openstructure-2.3.1/obj-arm-linux-gnueabihf/stage /build/openstructure-2.3.1/obj-arm-linux-gnueabihf/tests/ost_io_tests Running 159 test cases... unable to open database file WARNING: skipping SEQRES import unit test. Compound lib is required 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 *** No errors detected make[4]: Leaving directory '/build/openstructure-2.3.1/obj-arm-linux-gnueabihf' [100%] Built target ost_io_tests_run Sun May 28 21:21:03 UTC 2023 - pbuilder was killed by timeout after 18h.