Wed Jun 5 06:57:01 UTC 2024 I: starting to build coot/trixie/i386 on jenkins on '2024-06-05 06:56' Wed Jun 5 06:57:01 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_17/4363/console.log Wed Jun 5 06:57:01 UTC 2024 I: Downloading source for trixie/coot=1.1.08+dfsg-3 --2024-06-05 06:57:01-- http://deb.debian.org/debian/pool/main/c/coot/coot_1.1.08%2bdfsg-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2964 (2.9K) [text/prs.lines.tag] Saving to: ‘coot_1.1.08+dfsg-3.dsc’ 0K .. 100% 265M=0s 2024-06-05 06:57:01 (265 MB/s) - ‘coot_1.1.08+dfsg-3.dsc’ saved [2964/2964] Wed Jun 5 06:57:02 UTC 2024 I: coot_1.1.08+dfsg-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: coot Binary: coot, coot-data, coot-doc, libcootapi-dev, libcootapi1.1 Architecture: any all Version: 1.1.08+dfsg-3 Maintainer: Debian Science Maintainers Uploaders: Morten Kjeldgaard , Picca Frédéric-Emmanuel , Andrius Merkys , Gürkan Myczko , Homepage: https://github.com/pemsley/coot Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/science-team/coot Vcs-Git: https://salsa.debian.org/science-team/coot.git Testsuite: autopkgtest Build-Depends: bc, cmake, debhelper-compat (= 13), dh-sequence-python3, gemmi, gemmi-dev, ghostscript, imagemagick | graphicsmagick-imagemagick-compat, libasound2-dev, libblas-dev, libboost-dev, libboost-iostreams-dev, libboost-python-dev, libboost-system-dev, libboost-thread-dev, libcairo-dev, libccp4-data, libclipper-dev, libcurl4-gnutls-dev | libcurl-dev, libdw-dev, libeigen3-dev, libelf-dev, libgl-dev, libglib2.0-dev, libglm-dev, libgsl-dev, libgtkmm-4.0-dev, libmmdb2-dev, libpng-dev, libpython3-dev, librdkit-dev, libsqlite3-dev, libssm-dev, libvorbis-dev, nanobind-dev, python-gi-dev, python3-distutils, python3-rdkit, python3-requests, sharutils, swig, tao-pegtl-dev Package-List: coot deb science optional arch=any coot-data deb science optional arch=all coot-doc deb science optional arch=all libcootapi-dev deb libdevel optional arch=any libcootapi1.1 deb libs optional arch=any Checksums-Sha1: 402c73268bd3b6bdec26731371f1638cf8849fb7 86840880 coot_1.1.08+dfsg.orig.tar.xz 5fd39efcff7869d2198d537dede1ab504324fffb 52520 coot_1.1.08+dfsg-3.debian.tar.xz Checksums-Sha256: 4dadba60049a2b27d2988eb824ee15f2301bf45bb6931cc835fad7c04e1eb60b 86840880 coot_1.1.08+dfsg.orig.tar.xz 1ba8462e36645f580686543a0483d032c0a421157665e1a0ab8bc6f0b547ba15 52520 coot_1.1.08+dfsg-3.debian.tar.xz Files: a931dae088d4e3bb389f41e7057571c2 86840880 coot_1.1.08+dfsg.orig.tar.xz b58359508c59f4a7dc3d4ead9ede186c 52520 coot_1.1.08+dfsg-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEdyKS9veshfrgQdQe5fQ/nCc08ocFAmZZxJUSHG1lcmt5c0Bk ZWJpYW4ub3JnAAoJEOX0P5wnNPKHBMAP/RJiaehsyC95wV2Wfa8H1ocZdzlTV7eH cw3QZ3VzFHqUIm8DWEvfDEzZ5cFX2p0cMTqEY4DqnKVEjbOPb7V9dbEdNhKeyY5H EQHQxy9AuGXvxyfUVITazSnoLMoB2l8hRi8PeiiY5z0Fs+7k3pxAqaJ4JQN5vqWQ Ika5BIr+QUCN9cfH8lV+fyqp4/tIWtCM5UJfQlVQBRiJzUx1WUX62RFB4JXI3KBq M+0XOu9cgiyExNy5k2s9bvsMKu1o8iHeYql54D7u/g7IBCMCocs9X+rM9nH5RnWA mMo9g3bRl9rV/qpfsbK+KfbKp5lJ3i6Wb97plgiHYGYDPwnhWnkuj/rLHQ4J1bAe q7J+BLMZgZn9WUrPjLHP8UeUpuAZLwrEcJq/hb53YSU5IvVOcW5pMZbNlqq6uL96 l9TbFfExQq3AJqPZ2sADYOAGlnDQWQKxKaJD+1mXlnyTqd2S1BU16sILYEQHI/6o eWHuL5LI7R+2JLmYvk0yIT6t/ZCBR6FRohBEztlBj+85sGDR20W73+lH77TTT8id f2MWWXL2SIaoq79lnlFEsdycVNQeExnxZ0eBy5THe4Hk3HuWkwd74CjzRKO2YSOr q4cP5ESAbMpBOxM+3cT/NeZAE78mBBHl6nwgDlcSNmHNW23AHYGP8L80LbkxUwFI 7md4Su/PluwM =t1e1 -----END PGP SIGNATURE----- Wed Jun 5 06:57:02 UTC 2024 I: Checking whether the package is not for us Wed Jun 5 06:57:02 UTC 2024 I: Starting 1st build on remote node infom07-i386.debian.net. Wed Jun 5 06:57:02 UTC 2024 I: Preparing to do remote build '1' on infom07-i386.debian.net. Wed Jun 5 07:01:40 UTC 2024 I: Deleting $TMPDIR on infom07-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jun 4 18:57:06 -12 2024 I: pbuilder-time-stamp: 1717570626 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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: using eatmydata during job I: Copying source file I: copying [coot_1.1.08+dfsg-3.dsc] I: copying [./coot_1.1.08+dfsg.orig.tar.xz] I: copying [./coot_1.1.08+dfsg-3.debian.tar.xz] I: Extracting source gpgv: Signature made Fri May 31 12:37:41 2024 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 ./coot_1.1.08+dfsg-3.dsc: no acceptable signature found dpkg-source: info: extracting coot in coot-1.1.08+dfsg dpkg-source: info: unpacking coot_1.1.08+dfsg.orig.tar.xz dpkg-source: info: unpacking coot_1.1.08+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying drop-nonexistent-RDKit-libraries.patch dpkg-source: info: applying system-fonts.patch dpkg-source: info: applying no-RPATH.patch dpkg-source: info: applying a0fbdb6c679b30c576f3ea8ff438f44ee50cc612.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1169/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=6 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='61db04d4fa124534bcc029f6d6568fe4' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' 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='1169' 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.tJEBhQrg/pbuilderrc_N24Y --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.tJEBhQrg/b1 --logfile b1/build.log coot_1.1.08+dfsg-3.dsc' SUDO_GID='111' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom07-i386 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 3 11:23 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1169/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: i386 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: bc, cmake, debhelper-compat (= 13), dh-sequence-python3, gemmi, gemmi-dev, ghostscript, imagemagick | graphicsmagick-imagemagick-compat, libasound2-dev, libblas-dev, libboost-dev, libboost-iostreams-dev, libboost-python-dev, libboost-system-dev, libboost-thread-dev, libcairo-dev, libccp4-data, libclipper-dev, libcurl4-gnutls-dev | libcurl-dev, libdw-dev, libeigen3-dev, libelf-dev, libgl-dev, libglib2.0-dev, libglm-dev, libgsl-dev, libgtkmm-4.0-dev, libmmdb2-dev, libpng-dev, libpython3-dev, librdkit-dev, libsqlite3-dev, libssm-dev, libvorbis-dev, nanobind-dev, python-gi-dev, python3-distutils, python3-rdkit, python3-requests, sharutils, swig, tao-pegtl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19683 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 bc; however: Package bc 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-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on gemmi; however: Package gemmi is not installed. pbuilder-satisfydepends-dummy depends on gemmi-dev; however: Package gemmi-dev is not installed. pbuilder-satisfydepends-dummy depends on ghostscript; however: Package ghostscript is not installed. pbuilder-satisfydepends-dummy depends on imagemagick | graphicsmagick-imagemagick-compat; however: Package imagemagick is not installed. Package graphicsmagick-imagemagick-compat is not installed. pbuilder-satisfydepends-dummy depends on libasound2-dev; however: Package libasound2-dev is not installed. pbuilder-satisfydepends-dummy depends on libblas-dev; however: Package libblas-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-iostreams-dev; however: Package libboost-iostreams-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-python-dev; however: Package libboost-python-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-system-dev; however: Package libboost-system-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-thread-dev; however: Package libboost-thread-dev is not installed. pbuilder-satisfydepends-dummy depends on libcairo-dev; however: Package libcairo-dev is not installed. pbuilder-satisfydepends-dummy depends on libccp4-data; however: Package libccp4-data is not installed. pbuilder-satisfydepends-dummy depends on libclipper-dev; however: Package libclipper-dev is not installed. pbuilder-satisfydepends-dummy depends on libcurl4-gnutls-dev | libcurl-dev; however: Package libcurl4-gnutls-dev is not installed. Package libcurl-dev is not installed. pbuilder-satisfydepends-dummy depends on libdw-dev; however: Package libdw-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on libelf-dev; however: Package libelf-dev is not installed. pbuilder-satisfydepends-dummy depends on libgl-dev; however: Package libgl-dev is not installed. pbuilder-satisfydepends-dummy depends on libglib2.0-dev; however: Package libglib2.0-dev is not installed. pbuilder-satisfydepends-dummy depends on libglm-dev; however: Package libglm-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. pbuilder-satisfydepends-dummy depends on libgtkmm-4.0-dev; however: Package libgtkmm-4.0-dev is not installed. pbuilder-satisfydepends-dummy depends on libmmdb2-dev; however: Package libmmdb2-dev is not installed. pbuilder-satisfydepends-dummy depends on libpng-dev; however: Package libpng-dev is not installed. pbuilder-satisfydepends-dummy depends on libpython3-dev; however: Package libpython3-dev is not installed. pbuilder-satisfydepends-dummy depends on librdkit-dev; however: Package librdkit-dev is not installed. pbuilder-satisfydepends-dummy depends on libsqlite3-dev; however: Package libsqlite3-dev is not installed. pbuilder-satisfydepends-dummy depends on libssm-dev; however: Package libssm-dev is not installed. pbuilder-satisfydepends-dummy depends on libvorbis-dev; however: Package libvorbis-dev is not installed. pbuilder-satisfydepends-dummy depends on nanobind-dev; however: Package nanobind-dev is not installed. pbuilder-satisfydepends-dummy depends on python-gi-dev; however: Package python-gi-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-distutils; however: Package python3-distutils is not installed. pbuilder-satisfydepends-dummy depends on python3-rdkit; however: Package python3-rdkit is not installed. pbuilder-satisfydepends-dummy depends on python3-requests; however: Package python3-requests is not installed. pbuilder-satisfydepends-dummy depends on sharutils; however: Package sharutils is not installed. pbuilder-satisfydepends-dummy depends on swig; however: Package swig is not installed. pbuilder-satisfydepends-dummy depends on tao-pegtl-dev; however: Package tao-pegtl-dev 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: adwaita-icon-theme{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bc{a} bsdextrautils{a} ca-certificates{a} cmake{a} cmake-data{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dmsetup{a} dwz{a} fftw-dev{a} fftw2{a} file{a} fontconfig{a} fontconfig-config{a} fonts-freefont-ttf{a} fonts-urw-base35{a} gemmi{a} gemmi-dev{a} gettext{a} gettext-base{a} ghostscript{a} gir1.2-freedesktop{a} gir1.2-freedesktop-dev{a} gir1.2-gdkpixbuf-2.0{a} gir1.2-girepository-2.0{a} gir1.2-glib-2.0{a} gir1.2-glib-2.0-dev{a} gir1.2-graphene-1.0{a} gir1.2-gtk-4.0{a} gir1.2-harfbuzz-0.0{a} gir1.2-pango-1.0{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} icu-devtools{a} imagemagick{a} imagemagick-6-common{a} imagemagick-6.q16{a} intltool-debian{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libasound2-data{a} libasound2-dev{a} libasound2t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libblas-dev{a} libblas3{a} libblkid-dev{a} libboost-atomic1.83-dev{a} libboost-atomic1.83.0{a} libboost-chrono1.83-dev{a} libboost-chrono1.83.0t64{a} libboost-date-time1.83-dev{a} libboost-date-time1.83.0{a} libboost-dev{a} libboost-iostreams-dev{a} libboost-iostreams1.83-dev{a} libboost-python-dev{a} libboost-python1.83-dev{a} libboost-python1.83.0{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost-serialization1.83-dev{a} libboost-serialization1.83.0{a} libboost-system-dev{a} libboost-system1.83-dev{a} libboost-system1.83.0{a} libboost-thread-dev{a} libboost-thread1.83-dev{a} libboost-thread1.83.0{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbsd0{a} libbz2-dev{a} libcairo-gobject2{a} libcairo-script-interpreter2{a} libcairo2{a} libcairo2-dev{a} libcairomm-1.16-1{a} libcairomm-1.16-dev{a} libccp4-data{a} libccp4-dev{a} libccp4c0t64{a} libccp4f0t64{a} libclipper-dev{a} libclipper2{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcoordgen3{a} libcryptsetup12{a} libcups2t64{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdatrie-dev{a} libdatrie1{a} libdav1d7{a} libdbus-1-3{a} libdconf1{a} libde265-0{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevmapper1.02.1{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libdw-dev{a} libdw1t64{a} libedit2{a} libegl-dev{a} libegl-mesa0{a} libegl1{a} libegl1-mesa-dev{a} libeigen3-dev{a} libelf-dev{a} libelf1t64{a} libepoxy-dev{a} libepoxy0{a} libevent-core-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libfabric1{a} libfdisk1{a} libffi-dev{a} libfftw3-double3{a} libfile-stripnondeterminism-perl{a} libfontconfig-dev{a} libfontconfig1{a} libfontenc1{a} libfreetype-dev{a} libfreetype6{a} libfribidi-dev{a} libfribidi0{a} libgbm1{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf-2.0-dev{a} libgdk-pixbuf2.0-bin{a} libgdk-pixbuf2.0-common{a} libgfortran5{a} libgirepository-1.0-1{a} libgirepository-2.0-0{a} libgl-dev{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libgles-dev{a} libgles1{a} libgles2{a} libglib2.0-0t64{a} libglib2.0-bin{a} libglib2.0-data{a} libglib2.0-dev{a} libglib2.0-dev-bin{a} libglibmm-2.68-1t64{a} libglibmm-2.68-dev{a} libglm-dev{a} libglvnd-core-dev{a} libglvnd-dev{a} libglvnd0{a} libglx-dev{a} libglx-mesa0{a} libglx0{a} libgraphene-1.0-0{a} libgraphene-1.0-dev{a} libgraphite2-3{a} libgraphite2-dev{a} libgs-common{a} libgs10{a} libgs10-common{a} libgsl-dev{a} libgsl27{a} libgslcblas0{a} libgssapi-krb5-2{a} libgtk-4-1{a} libgtk-4-common{a} libgtk-4-dev{a} libgtkmm-4.0-0{a} libgtkmm-4.0-dev{a} libharfbuzz-cairo0{a} libharfbuzz-dev{a} libharfbuzz-gobject0{a} libharfbuzz-icu0{a} libharfbuzz-subset0{a} libharfbuzz0b{a} libheif-plugin-dav1d{a} libheif-plugin-libde265{a} libheif1{a} libhwloc-plugins{a} libhwloc15{a} libibverbs1{a} libice-dev{a} libice6{a} libicu-dev{a} libicu72{a} libidn12{a} libijs-0.35{a} libjbig-dev{a} libjbig0{a} libjbig2dec0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-c5{a} libjsoncpp25{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblcms2-2{a} libldap-2.5-0{a} liblerc-dev{a} liblerc4{a} libllvm17t64{a} liblqr-1-0{a} libltdl7{a} liblzma-dev{a} liblzo2-2{a} libmaeparser1{a} libmagic-mgc{a} libmagic1t64{a} libmagickcore-6.q16-7t64{a} libmagickwand-6.q16-7t64{a} libmmdb2-0{a} libmmdb2-dev{a} libmount-dev{a} libnghttp2-14{a} libnl-3-200{a} libnl-route-3-200{a} libogg-dev{a} libogg0{a} libopengl-dev{a} libopengl0{a} libopenjp2-7{a} libopenmpi3t64{a} libpam-systemd{a} libpango-1.0-0{a} libpango1.0-dev{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpangomm-2.48-1t64{a} libpangomm-2.48-dev{a} libpangoxft-1.0-0{a} libpaper1{a} libpciaccess0{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpixman-1-dev{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libproc2-0{a} libpsl5t64{a} libpsm-infinipath1{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.11t64{a} libraw23t64{a} librdkit-dev{a} librdkit1t64{a} librdmacm1t64{a} libreadline8t64{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libselinux1-dev{a} libsensors-config{a} libsensors5{a} libsepol-dev{a} libsharpyuv-dev{a} libsharpyuv0{a} libsigc++-3.0-0{a} libsigc++-3.0-dev{a} libsm-dev{a} libsm6{a} libsqlite3-dev{a} libssh2-1t64{a} libssm-dev{a} libssm2{a} libsysprof-capture-4-dev{a} libsystemd-shared{a} libthai-data{a} libthai-dev{a} libthai0{a} libtiff-dev{a} libtiff6{a} libtiffxx6{a} libtool{a} libuchardet0{a} libuv1t64{a} libvorbis-dev{a} libvorbis0a{a} libvorbisenc2{a} libvorbisfile3{a} libvulkan-dev{a} libvulkan1{a} libwayland-bin{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-dev{a} libwayland-egl1{a} libwayland-server0{a} libwebp-dev{a} libwebp7{a} libwebpdecoder3{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-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-render0-dev{a} libxcb-shm0{a} libxcb-shm0-dev{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcb1-dev{a} libxcomposite-dev{a} libxcomposite1{a} libxcursor-dev{a} libxcursor1{a} libxdamage-dev{a} libxdamage1{a} libxdmcp-dev{a} libxdmcp6{a} libxext-dev{a} libxext6{a} libxfixes-dev{a} libxfixes3{a} libxft-dev{a} libxft2{a} libxi-dev{a} libxi6{a} libxinerama-dev{a} libxinerama1{a} libxkbcommon-dev{a} libxkbcommon0{a} libxml2{a} libxnvctrl0{a} libxrandr-dev{a} libxrandr2{a} libxrender-dev{a} libxrender1{a} libxshmfence1{a} libxt6t64{a} libxxf86vm1{a} libz3-4{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} nanobind-dev{a} netbase{a} ocl-icd-libopencl1{a} openssl{a} pango1.0-tools{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} poppler-data{a} procps{a} python-gi-dev{a} python3{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-dev{a} python3-distutils{a} python3-gi{a} python3-idna{a} python3-lib2to3{a} python3-minimal{a} python3-numpy{a} python3-packaging{a} python3-pkg-resources{a} python3-rdkit{a} python3-requests{a} python3-setuptools{a} python3-six{a} python3-urllib3{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} rdkit-data{a} readline-common{a} robin-map-dev{a} sensible-utils{a} sfftw-dev{a} sfftw2{a} shared-mime-info{a} sharutils{a} swig{a} systemd{a} systemd-sysv{a} tao-pegtl-dev{a} tzdata{a} ucf{a} uuid-dev{a} wayland-protocols{a} x11-common{a} x11proto-core-dev{a} x11proto-dev{a} xfonts-encodings{a} xfonts-utils{a} xkb-data{a} xorg-sgml-doctools{a} xtrans-dev{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf bzip2-doc chrony curl fonts-droid-fallback ibverbs-providers iso-codes javascript-common krb5-locales libarchive-cpio-perl libgtk-4-bin libgtk-4-media-gstreamer libheif-plugin-aomenc libheif-plugin-x265 libkmod2 libldap-common libltdl-dev libmagickcore-6.q16-7-extra libmail-sendmail-perl libnss-systemd libpaper-utils libpng-tools librsvg2-common libsasl2-modules lynx mesa-vulkan-drivers netpbm ntpsec openntpd psmisc publicsuffix systemd-timesyncd wget xdg-user-dirs 0 packages upgraded, 453 newly installed, 0 to remove and 0 not upgraded. Need to get 268 MB of archives. After unpacking 1251 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main i386 libapparmor1 i386 3.0.13-2 [42.5 kB] Get: 2 http://deb.debian.org/debian trixie/main i386 dmsetup i386 2:1.02.196-1+b1 [77.8 kB] Get: 3 http://deb.debian.org/debian trixie/main i386 libdevmapper1.02.1 i386 2:1.02.196-1+b1 [128 kB] Get: 4 http://deb.debian.org/debian trixie/main i386 libjson-c5 i386 0.17-1+b1 [46.6 kB] Get: 5 http://deb.debian.org/debian trixie/main i386 libcryptsetup12 i386 2:2.7.2-2 [286 kB] Get: 6 http://deb.debian.org/debian trixie/main i386 libfdisk1 i386 2.40.1-4 [227 kB] Get: 7 http://deb.debian.org/debian trixie/main i386 libsystemd-shared i386 256~rc3-7 [2106 kB] Get: 8 http://deb.debian.org/debian trixie/main i386 systemd i386 256~rc3-7 [3714 kB] Get: 9 http://deb.debian.org/debian trixie/main i386 systemd-sysv i386 256~rc3-7 [55.5 kB] Get: 10 http://deb.debian.org/debian trixie/main i386 libdbus-1-3 i386 1.14.10-4+b1 [217 kB] Get: 11 http://deb.debian.org/debian trixie/main i386 dbus-bin i386 1.14.10-4+b1 [107 kB] Get: 12 http://deb.debian.org/debian trixie/main i386 dbus-session-bus-common all 1.14.10-4 [79.0 kB] Get: 13 http://deb.debian.org/debian trixie/main i386 libexpat1 i386 2.6.2-1 [107 kB] Get: 14 http://deb.debian.org/debian trixie/main i386 dbus-daemon i386 1.14.10-4+b1 [195 kB] Get: 15 http://deb.debian.org/debian trixie/main i386 dbus-system-bus-common all 1.14.10-4 [80.1 kB] Get: 16 http://deb.debian.org/debian trixie/main i386 dbus i386 1.14.10-4+b1 [101 kB] Get: 17 http://deb.debian.org/debian trixie/main i386 libfftw3-double3 i386 3.3.10-1+b2 [624 kB] Get: 18 http://deb.debian.org/debian trixie/main i386 libbrotli1 i386 1.1.0-2+b3 [314 kB] Get: 19 http://deb.debian.org/debian trixie/main i386 libpng16-16t64 i386 1.6.43-5 [286 kB] Get: 20 http://deb.debian.org/debian trixie/main i386 libfreetype6 i386 2.13.2+dfsg-1+b4 [449 kB] Get: 21 http://deb.debian.org/debian trixie/main i386 fonts-freefont-ttf all 20211204+svn4273-2 [5318 kB] Get: 22 http://deb.debian.org/debian trixie/main i386 libfontenc1 i386 1:1.1.8-1 [23.1 kB] Get: 23 http://deb.debian.org/debian trixie/main i386 x11-common all 1:7.7+23 [252 kB] Get: 24 http://deb.debian.org/debian trixie/main i386 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 25 http://deb.debian.org/debian trixie/main i386 xfonts-utils i386 1:7.7+6 [95.2 kB] Get: 26 http://deb.debian.org/debian trixie/main i386 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 27 http://deb.debian.org/debian trixie/main i386 fontconfig-config i386 2.15.0-1.1 [317 kB] Get: 28 http://deb.debian.org/debian trixie/main i386 libfontconfig1 i386 2.15.0-1.1 [401 kB] Get: 29 http://deb.debian.org/debian trixie/main i386 libsharpyuv0 i386 1.4.0-0.1 [113 kB] Get: 30 http://deb.debian.org/debian trixie/main i386 libdav1d7 i386 1.4.2-1 [327 kB] Get: 31 http://deb.debian.org/debian trixie/main i386 libheif-plugin-dav1d i386 1.17.6-1+b2 [10.2 kB] Get: 32 http://deb.debian.org/debian trixie/main i386 libde265-0 i386 1.0.15-1+b1 [195 kB] Get: 33 http://deb.debian.org/debian trixie/main i386 libheif-plugin-libde265 i386 1.17.6-1+b2 [13.7 kB] Get: 34 http://deb.debian.org/debian trixie/main i386 libheif1 i386 1.17.6-1+b2 [299 kB] Get: 35 http://deb.debian.org/debian trixie/main i386 libjbig0 i386 2.1-6.1+b1 [31.8 kB] Get: 36 http://deb.debian.org/debian trixie/main i386 libjpeg62-turbo i386 1:2.1.5-3 [169 kB] Get: 37 http://deb.debian.org/debian trixie/main i386 liblcms2-2 i386 2.14-2+b1 [165 kB] Get: 38 http://deb.debian.org/debian trixie/main i386 libglib2.0-0t64 i386 2.80.2-2 [1556 kB] Get: 39 http://deb.debian.org/debian trixie/main i386 liblqr-1-0 i386 0.4.2-2.1+b1 [31.8 kB] Get: 40 http://deb.debian.org/debian trixie/main i386 libltdl7 i386 2.4.7-7+b1 [395 kB] Get: 41 http://deb.debian.org/debian trixie/main i386 libopenjp2-7 i386 2.5.0-2+b3 [197 kB] Get: 42 http://deb.debian.org/debian trixie/main i386 libraw23t64 i386 0.21.2-2.1 [407 kB] Get: 43 http://deb.debian.org/debian trixie/main i386 libdeflate0 i386 1.20-1 [46.9 kB] Get: 44 http://deb.debian.org/debian trixie/main i386 liblerc4 i386 4.0.0+ds-4+b1 [180 kB] Get: 45 http://deb.debian.org/debian trixie/main i386 libwebp7 i386 1.4.0-0.1 [318 kB] Get: 46 http://deb.debian.org/debian trixie/main i386 libtiff6 i386 4.5.1+git230720-4 [338 kB] Get: 47 http://deb.debian.org/debian trixie/main i386 libwebpdemux2 i386 1.4.0-0.1 [111 kB] Get: 48 http://deb.debian.org/debian trixie/main i386 libwebpmux3 i386 1.4.0-0.1 [125 kB] Get: 49 http://deb.debian.org/debian trixie/main i386 libxau6 i386 1:1.0.9-1+b1 [18.5 kB] Get: 50 http://deb.debian.org/debian trixie/main i386 libbsd0 i386 0.12.2-1 [134 kB] Get: 51 http://deb.debian.org/debian trixie/main i386 libxdmcp6 i386 1:1.1.2-3+b1 [24.8 kB] Get: 52 http://deb.debian.org/debian trixie/main i386 libxcb1 i386 1.17.0-2 [148 kB] Get: 53 http://deb.debian.org/debian trixie/main i386 libx11-data all 2:1.8.7-1 [328 kB] Get: 54 http://deb.debian.org/debian trixie/main i386 libx11-6 i386 2:1.8.7-1+b1 [822 kB] Get: 55 http://deb.debian.org/debian trixie/main i386 libxext6 i386 2:1.3.4-1+b1 [55.3 kB] Get: 56 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-4+b1 [9549 kB] Get: 57 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.9.14+dfsg-1.3+b3 [727 kB] Get: 58 http://deb.debian.org/debian trixie/main i386 imagemagick-6-common all 8:6.9.12.98+dfsg1-5.2 [67.1 kB] Get: 59 http://deb.debian.org/debian trixie/main i386 libmagickcore-6.q16-7t64 i386 8:6.9.12.98+dfsg1-5.2 [1758 kB] Get: 60 http://deb.debian.org/debian trixie/main i386 libmagickwand-6.q16-7t64 i386 8:6.9.12.98+dfsg1-5.2 [298 kB] Get: 61 http://deb.debian.org/debian trixie/main i386 poppler-data all 0.4.12-1 [1601 kB] Get: 62 http://deb.debian.org/debian trixie/main i386 libpython3.11-minimal i386 3.11.9-1 [817 kB] Get: 63 http://deb.debian.org/debian trixie/main i386 python3.11-minimal i386 3.11.9-1 [1918 kB] Get: 64 http://deb.debian.org/debian trixie/main i386 python3-minimal i386 3.11.8-1 [26.3 kB] Get: 65 http://deb.debian.org/debian trixie/main i386 media-types all 10.1.0 [26.9 kB] Get: 66 http://deb.debian.org/debian trixie/main i386 netbase all 6.4 [12.8 kB] Get: 67 http://deb.debian.org/debian trixie/main i386 tzdata all 2024a-4 [255 kB] Get: 68 http://deb.debian.org/debian trixie/main i386 readline-common all 8.2-4 [69.3 kB] Get: 69 http://deb.debian.org/debian trixie/main i386 libreadline8t64 i386 8.2-4 [171 kB] Get: 70 http://deb.debian.org/debian trixie/main i386 libpython3.11-stdlib i386 3.11.9-1 [1795 kB] Get: 71 http://deb.debian.org/debian trixie/main i386 python3.11 i386 3.11.9-1 [602 kB] Get: 72 http://deb.debian.org/debian trixie/main i386 libpython3-stdlib i386 3.11.8-1 [9336 B] Get: 73 http://deb.debian.org/debian trixie/main i386 python3 i386 3.11.8-1 [27.4 kB] Get: 74 http://deb.debian.org/debian trixie/main i386 libproc2-0 i386 2:4.0.4-4 [65.4 kB] Get: 75 http://deb.debian.org/debian trixie/main i386 procps i386 2:4.0.4-4 [876 kB] Get: 76 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.22 [22.4 kB] Get: 77 http://deb.debian.org/debian trixie/main i386 openssl i386 3.2.1-3 [1364 kB] Get: 78 http://deb.debian.org/debian trixie/main i386 ca-certificates all 20240203 [158 kB] Get: 79 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-3 [314 kB] Get: 80 http://deb.debian.org/debian trixie/main i386 libmagic1t64 i386 1:5.45-3 [114 kB] Get: 81 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-3 [42.9 kB] Get: 82 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.21-14+b1 [162 kB] Get: 83 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b1 [69.1 kB] Get: 84 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-4 [1194 kB] Get: 85 http://deb.debian.org/debian trixie/main i386 libpam-systemd i386 256~rc3-7 [282 kB] Get: 86 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.40.1-4 [100 kB] Get: 87 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.7-2 [39.7 kB] Get: 88 http://deb.debian.org/debian trixie/main i386 man-db i386 2.12.1-1 [1421 kB] Get: 89 http://deb.debian.org/debian trixie/main i386 ucf all 3.0043+nmu1 [55.2 kB] Get: 90 http://deb.debian.org/debian trixie/main i386 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [311 kB] Get: 91 http://deb.debian.org/debian trixie/main i386 shared-mime-info i386 2.4-5 [760 kB] Get: 92 http://deb.debian.org/debian trixie/main i386 libgdk-pixbuf-2.0-0 i386 2.42.12+dfsg-1 [147 kB] Get: 93 http://deb.debian.org/debian trixie/main i386 gtk-update-icon-cache i386 3.24.42-1 [47.0 kB] Get: 94 http://deb.debian.org/debian trixie/main i386 hicolor-icon-theme all 0.18-1 [12.0 kB] Get: 95 http://deb.debian.org/debian trixie/main i386 adwaita-icon-theme all 46.0-1 [614 kB] Get: 96 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB] Get: 97 http://deb.debian.org/debian trixie/main i386 autoconf all 2.71-3 [332 kB] Get: 98 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 99 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 100 http://deb.debian.org/debian trixie/main i386 autopoint all 0.21-14 [496 kB] Get: 101 http://deb.debian.org/debian trixie/main i386 bc i386 1.07.1-4 [105 kB] Get: 102 http://deb.debian.org/debian trixie/main i386 libarchive13t64 i386 3.7.2-2 [387 kB] Get: 103 http://deb.debian.org/debian trixie/main i386 libkrb5support0 i386 1.20.1-6+b1 [36.1 kB] Get: 104 http://deb.debian.org/debian trixie/main i386 libcom-err2 i386 1.47.1-1 [23.1 kB] Get: 105 http://deb.debian.org/debian trixie/main i386 libk5crypto3 i386 1.20.1-6+b1 [83.2 kB] Get: 106 http://deb.debian.org/debian trixie/main i386 libkeyutils1 i386 1.6.3-3 [9432 B] Get: 107 http://deb.debian.org/debian trixie/main i386 libkrb5-3 i386 1.20.1-6+b1 [360 kB] Get: 108 http://deb.debian.org/debian trixie/main i386 libgssapi-krb5-2 i386 1.20.1-6+b1 [145 kB] Get: 109 http://deb.debian.org/debian trixie/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-6 [20.5 kB] Get: 110 http://deb.debian.org/debian trixie/main i386 libsasl2-2 i386 2.1.28+dfsg1-6 [60.6 kB] Get: 111 http://deb.debian.org/debian trixie/main i386 libldap-2.5-0 i386 2.5.17+dfsg-1 [198 kB] Get: 112 http://deb.debian.org/debian trixie/main i386 libnghttp2-14 i386 1.61.0-1+b1 [84.0 kB] Get: 113 http://deb.debian.org/debian trixie/main i386 libpsl5t64 i386 0.21.2-1.1 [57.4 kB] Get: 114 http://deb.debian.org/debian trixie/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b4 [62.0 kB] Get: 115 http://deb.debian.org/debian trixie/main i386 libssh2-1t64 i386 1.11.0-5 [225 kB] Get: 116 http://deb.debian.org/debian trixie/main i386 libcurl4t64 i386 8.8.0-1 [477 kB] Get: 117 http://deb.debian.org/debian trixie/main i386 libjsoncpp25 i386 1.9.5-6+b2 [89.2 kB] Get: 118 http://deb.debian.org/debian trixie/main i386 librhash0 i386 1.4.3-3+b1 [143 kB] Get: 119 http://deb.debian.org/debian trixie/main i386 libuv1t64 i386 1.48.0-4 [156 kB] Get: 120 http://deb.debian.org/debian trixie/main i386 cmake-data all 3.29.3-1 [2167 kB] Get: 121 http://deb.debian.org/debian trixie/main i386 cmake i386 3.29.3-1+b2 [11.9 MB] Get: 122 http://deb.debian.org/debian trixie/main i386 dbus-user-session i386 1.14.10-4+b1 [79.1 kB] Get: 123 http://deb.debian.org/debian trixie/main i386 libdconf1 i386 0.40.0-4+b2 [43.6 kB] Get: 124 http://deb.debian.org/debian trixie/main i386 dconf-service i386 0.40.0-4+b2 [35.0 kB] Get: 125 http://deb.debian.org/debian trixie/main i386 dconf-gsettings-backend i386 0.40.0-4+b2 [30.7 kB] Get: 126 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 127 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-7 [517 kB] Get: 128 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB] Get: 129 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 130 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 131 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 132 http://deb.debian.org/debian trixie/main i386 libelf1t64 i386 0.191-1+b1 [194 kB] Get: 133 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 134 http://deb.debian.org/debian trixie/main i386 gettext i386 0.21-14+b1 [1311 kB] Get: 135 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 136 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 137 http://deb.debian.org/debian trixie/main i386 debhelper all 13.15.3 [901 kB] Get: 138 http://deb.debian.org/debian trixie/main i386 python3-pkg-resources all 68.1.2-2 [241 kB] Get: 139 http://deb.debian.org/debian trixie/main i386 python3-lib2to3 all 3.12.3-3.1 [77.7 kB] Get: 140 http://deb.debian.org/debian trixie/main i386 python3-distutils all 3.12.3-3.1 [131 kB] Get: 141 http://deb.debian.org/debian trixie/main i386 python3-setuptools all 68.1.2-2 [468 kB] Get: 142 http://deb.debian.org/debian trixie/main i386 dh-python all 6.20240422 [107 kB] Get: 143 http://deb.debian.org/debian trixie/main i386 libevent-core-2.1-7t64 i386 2.1.12-stable-10 [140 kB] Get: 144 http://deb.debian.org/debian trixie/main i386 libevent-pthreads-2.1-7t64 i386 2.1.12-stable-10 [54.1 kB] Get: 145 http://deb.debian.org/debian trixie/main i386 libnl-3-200 i386 3.7.0-0.3 [61.8 kB] Get: 146 http://deb.debian.org/debian trixie/main i386 libnl-route-3-200 i386 3.7.0-0.3 [193 kB] Get: 147 http://deb.debian.org/debian trixie/main i386 libibverbs1 i386 50.0-2+b1 [66.7 kB] Get: 148 http://deb.debian.org/debian trixie/main i386 libpsm-infinipath1 i386 3.3+20.604758e7-6.3 [177 kB] Get: 149 http://deb.debian.org/debian trixie/main i386 librdmacm1t64 i386 50.0-2+b1 [76.0 kB] Get: 150 http://deb.debian.org/debian trixie/main i386 libfabric1 i386 1.17.0-3+b1 [540 kB] Get: 151 http://deb.debian.org/debian trixie/main i386 libhwloc15 i386 2.10.0-1+b1 [175 kB] Get: 152 http://deb.debian.org/debian trixie/main i386 libpciaccess0 i386 0.17-3+b1 [53.8 kB] Get: 153 http://deb.debian.org/debian trixie/main i386 libxnvctrl0 i386 535.171.04-1 [13.7 kB] Get: 154 http://deb.debian.org/debian trixie/main i386 ocl-icd-libopencl1 i386 2.3.2-1+b1 [43.5 kB] Get: 155 http://deb.debian.org/debian trixie/main i386 libhwloc-plugins i386 2.10.0-1+b1 [18.4 kB] Get: 156 http://deb.debian.org/debian trixie/main i386 libopenmpi3t64 i386 4.1.6-13.3 [2626 kB] Get: 157 http://deb.debian.org/debian trixie/main i386 fftw2 i386 2.1.5-6+b1 [196 kB] Get: 158 http://deb.debian.org/debian trixie/main i386 fftw-dev i386 2.1.5-6+b1 [234 kB] Get: 159 http://deb.debian.org/debian trixie/main i386 fontconfig i386 2.15.0-1.1 [462 kB] Get: 160 http://deb.debian.org/debian trixie/main i386 gemmi i386 0.6.5+ds-1 [1325 kB] Get: 161 http://deb.debian.org/debian trixie/main i386 gemmi-dev i386 0.6.5+ds-1 [1197 kB] Get: 162 http://deb.debian.org/debian trixie/main i386 libgs-common all 10.03.1~dfsg-1 [148 kB] Get: 163 http://deb.debian.org/debian trixie/main i386 libgs10-common all 10.03.1~dfsg-1 [474 kB] Get: 164 http://deb.debian.org/debian trixie/main i386 libavahi-common-data i386 0.8-13+b2 [112 kB] Get: 165 http://deb.debian.org/debian trixie/main i386 libavahi-common3 i386 0.8-13+b2 [45.3 kB] Get: 166 http://deb.debian.org/debian trixie/main i386 libavahi-client3 i386 0.8-13+b2 [49.3 kB] Get: 167 http://deb.debian.org/debian trixie/main i386 libcups2t64 i386 2.4.7-1.2+b1 [264 kB] Get: 168 http://deb.debian.org/debian trixie/main i386 libidn12 i386 1.42-2 [81.3 kB] Get: 169 http://deb.debian.org/debian trixie/main i386 libijs-0.35 i386 0.35-15.1+b1 [15.7 kB] Get: 170 http://deb.debian.org/debian trixie/main i386 libjbig2dec0 i386 0.20-1+b2 [66.5 kB] Get: 171 http://deb.debian.org/debian trixie/main i386 libpaper1 i386 1.1.29+b1 [13.0 kB] Get: 172 http://deb.debian.org/debian trixie/main i386 libice6 i386 2:1.0.10-1+b1 [58.6 kB] Get: 173 http://deb.debian.org/debian trixie/main i386 libsm6 i386 2:1.2.3-1+b1 [33.9 kB] Get: 174 http://deb.debian.org/debian trixie/main i386 libxt6t64 i386 1:1.2.1-1.2 [193 kB] Get: 175 http://deb.debian.org/debian trixie/main i386 libgs10 i386 10.03.1~dfsg-1 [2650 kB] Get: 176 http://deb.debian.org/debian trixie/main i386 ghostscript i386 10.03.1~dfsg-1 [50.3 kB] Get: 177 http://deb.debian.org/debian trixie/main i386 gir1.2-glib-2.0 i386 2.80.2-2 [190 kB] Get: 178 http://deb.debian.org/debian trixie/main i386 libpixman-1-0 i386 0.42.2-1+b1 [555 kB] Get: 179 http://deb.debian.org/debian trixie/main i386 libxcb-render0 i386 1.17.0-2 [116 kB] Get: 180 http://deb.debian.org/debian trixie/main i386 libxcb-shm0 i386 1.17.0-2 [105 kB] Get: 181 http://deb.debian.org/debian trixie/main i386 libxrender1 i386 1:0.9.10-1.1+b1 [28.8 kB] Get: 182 http://deb.debian.org/debian trixie/main i386 libcairo2 i386 1.18.0-3+b1 [588 kB] Get: 183 http://deb.debian.org/debian trixie/main i386 libcairo-gobject2 i386 1.18.0-3+b1 [129 kB] Get: 184 http://deb.debian.org/debian trixie/main i386 gir1.2-freedesktop i386 1.80.1-3 [46.9 kB] Get: 185 http://deb.debian.org/debian trixie/main i386 gir1.2-glib-2.0-dev i386 2.80.2-2 [893 kB] Get: 186 http://deb.debian.org/debian trixie/main i386 gir1.2-freedesktop-dev i386 1.80.1-3 [42.3 kB] Get: 187 http://deb.debian.org/debian trixie/main i386 gir1.2-gdkpixbuf-2.0 i386 2.42.12+dfsg-1 [14.0 kB] Get: 188 http://deb.debian.org/debian trixie/main i386 libgirepository-1.0-1 i386 1.80.1-3 [120 kB] Get: 189 http://deb.debian.org/debian trixie/main i386 gir1.2-girepository-2.0 i386 1.80.1-3 [37.6 kB] Get: 190 http://deb.debian.org/debian trixie/main i386 libgraphene-1.0-0 i386 1.10.8-3+b1 [57.0 kB] Get: 191 http://deb.debian.org/debian trixie/main i386 gir1.2-graphene-1.0 i386 1.10.8-3+b1 [13.0 kB] Get: 192 http://deb.debian.org/debian trixie/main i386 libgraphite2-3 i386 1.3.14-2 [77.7 kB] Get: 193 http://deb.debian.org/debian trixie/main i386 libharfbuzz0b i386 8.3.0-2+b1 [2234 kB] Get: 194 http://deb.debian.org/debian trixie/main i386 libharfbuzz-gobject0 i386 8.3.0-2+b1 [1783 kB] Get: 195 http://deb.debian.org/debian trixie/main i386 gir1.2-harfbuzz-0.0 i386 8.3.0-2+b1 [1794 kB] Get: 196 http://deb.debian.org/debian trixie/main i386 libfribidi0 i386 1.0.13-3+b1 [71.8 kB] Get: 197 http://deb.debian.org/debian trixie/main i386 libthai-data all 0.1.29-2 [168 kB] Get: 198 http://deb.debian.org/debian trixie/main i386 libdatrie1 i386 0.2.13-3 [39.5 kB] Get: 199 http://deb.debian.org/debian trixie/main i386 libthai0 i386 0.1.29-2 [50.1 kB] Get: 200 http://deb.debian.org/debian trixie/main i386 libpango-1.0-0 i386 1.52.2+ds-1 [226 kB] Get: 201 http://deb.debian.org/debian trixie/main i386 libpangoft2-1.0-0 i386 1.52.2+ds-1 [51.2 kB] Get: 202 http://deb.debian.org/debian trixie/main i386 libpangocairo-1.0-0 i386 1.52.2+ds-1 [35.9 kB] Get: 203 http://deb.debian.org/debian trixie/main i386 libxft2 i386 2.3.6-1+b1 [55.3 kB] Get: 204 http://deb.debian.org/debian trixie/main i386 libpangoxft-1.0-0 i386 1.52.2+ds-1 [27.8 kB] Get: 205 http://deb.debian.org/debian trixie/main i386 gir1.2-pango-1.0 i386 1.52.2+ds-1 [38.5 kB] Get: 206 http://deb.debian.org/debian trixie/main i386 liblzo2-2 i386 2.10-3 [57.6 kB] Get: 207 http://deb.debian.org/debian trixie/main i386 libcairo-script-interpreter2 i386 1.18.0-3+b1 [62.4 kB] Get: 208 http://deb.debian.org/debian trixie/main i386 libcloudproviders0 i386 0.3.6-1 [30.5 kB] Get: 209 http://deb.debian.org/debian trixie/main i386 libcolord2 i386 1.4.7-1+b1 [145 kB] Get: 210 http://deb.debian.org/debian trixie/main i386 libepoxy0 i386 1.5.10-1+b2 [196 kB] Get: 211 http://deb.debian.org/debian trixie/main i386 libwayland-client0 i386 1.22.0-2.1+b1 [26.4 kB] Get: 212 http://deb.debian.org/debian trixie/main i386 libwayland-egl1 i386 1.22.0-2.1+b1 [5712 B] Get: 213 http://deb.debian.org/debian trixie/main i386 libxfixes3 i386 1:6.0.0-2+b1 [20.7 kB] Get: 214 http://deb.debian.org/debian trixie/main i386 libxcursor1 i386 1:1.2.1-1+b1 [37.6 kB] Get: 215 http://deb.debian.org/debian trixie/main i386 libxdamage1 i386 1:1.1.6-1+b1 [15.6 kB] Get: 216 http://deb.debian.org/debian trixie/main i386 libxi6 i386 2:1.8.1-1 [81.0 kB] Get: 217 http://deb.debian.org/debian trixie/main i386 libxinerama1 i386 2:1.1.4-3+b1 [16.3 kB] Get: 218 http://deb.debian.org/debian trixie/main i386 xkb-data all 2.41-2 [795 kB] Get: 219 http://deb.debian.org/debian trixie/main i386 libxkbcommon0 i386 1.6.0-1+b1 [115 kB] Get: 220 http://deb.debian.org/debian trixie/main i386 libxrandr2 i386 2:1.5.4-1 [37.7 kB] Get: 221 http://deb.debian.org/debian trixie/main i386 libgtk-4-common all 4.12.5+ds-6 [2185 kB] Get: 222 http://deb.debian.org/debian trixie/main i386 libgtk-4-1 i386 4.12.5+ds-6+b1 [2892 kB] Get: 223 http://deb.debian.org/debian trixie/main i386 gir1.2-gtk-4.0 i386 4.12.5+ds-6+b1 [203 kB] Get: 224 http://deb.debian.org/debian trixie/main i386 icu-devtools i386 72.1-4+b1 [216 kB] Get: 225 http://deb.debian.org/debian trixie/main i386 imagemagick-6.q16 i386 8:6.9.12.98+dfsg1-5.2 [290 kB] Get: 226 http://deb.debian.org/debian trixie/main i386 imagemagick i386 8:6.9.12.98+dfsg1-5.2 [19.4 kB] Get: 227 http://deb.debian.org/debian trixie/main i386 libasound2-data all 1.2.11-1 [20.9 kB] Get: 228 http://deb.debian.org/debian trixie/main i386 libasound2t64 i386 1.2.11-1+b1 [395 kB] Get: 229 http://deb.debian.org/debian trixie/main i386 libasound2-dev i386 1.2.11-1+b1 [116 kB] Get: 230 http://deb.debian.org/debian trixie/main i386 libblas3 i386 3.12.0-3 [140 kB] Get: 231 http://deb.debian.org/debian trixie/main i386 libblas-dev i386 3.12.0-3 [152 kB] Get: 232 http://deb.debian.org/debian trixie/main i386 uuid-dev i386 2.40.1-4 [46.4 kB] Get: 233 http://deb.debian.org/debian trixie/main i386 libblkid-dev i386 2.40.1-4 [226 kB] Get: 234 http://deb.debian.org/debian trixie/main i386 libboost1.83-dev i386 1.83.0-3 [10.6 MB] Get: 235 http://deb.debian.org/debian trixie/main i386 libboost-atomic1.83.0 i386 1.83.0-3 [233 kB] Get: 236 http://deb.debian.org/debian trixie/main i386 libboost-atomic1.83-dev i386 1.83.0-3 [235 kB] Get: 237 http://deb.debian.org/debian trixie/main i386 libboost-chrono1.83.0t64 i386 1.83.0-3 [241 kB] Get: 238 http://deb.debian.org/debian trixie/main i386 libboost-chrono1.83-dev i386 1.83.0-3 [247 kB] Get: 239 http://deb.debian.org/debian trixie/main i386 libboost-date-time1.83.0 i386 1.83.0-3 [230 kB] Get: 240 http://deb.debian.org/debian trixie/main i386 libboost-serialization1.83.0 i386 1.83.0-3 [341 kB] Get: 241 http://deb.debian.org/debian trixie/main i386 libboost-serialization1.83-dev i386 1.83.0-3 [384 kB] Get: 242 http://deb.debian.org/debian trixie/main i386 libboost-date-time1.83-dev i386 1.83.0-3 [239 kB] Get: 243 http://deb.debian.org/debian trixie/main i386 libboost-dev i386 1.83.0.2+b2 [3840 B] Get: 244 http://deb.debian.org/debian trixie/main i386 libboost-regex1.83.0 i386 1.83.0-3 [328 kB] Get: 245 http://deb.debian.org/debian trixie/main i386 libicu-dev i386 72.1-4+b1 [10.6 MB] Get: 246 http://deb.debian.org/debian trixie/main i386 libboost-regex1.83-dev i386 1.83.0-3 [347 kB] Get: 247 http://deb.debian.org/debian trixie/main i386 libboost-iostreams1.83-dev i386 1.83.0-3 [264 kB] Get: 248 http://deb.debian.org/debian trixie/main i386 libboost-iostreams-dev i386 1.83.0.2+b2 [3588 B] Get: 249 http://deb.debian.org/debian trixie/main i386 libboost-python1.83.0 i386 1.83.0-3 [358 kB] Get: 250 http://deb.debian.org/debian trixie/main i386 libpython3.11t64 i386 3.11.9-1 [1982 kB] Get: 251 http://deb.debian.org/debian trixie/main i386 libexpat1-dev i386 2.6.2-1 [165 kB] Get: 252 http://deb.debian.org/debian trixie/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1 [915 kB] Get: 253 http://deb.debian.org/debian trixie/main i386 libpython3.11-dev i386 3.11.9-1 [4632 kB] Get: 254 http://deb.debian.org/debian trixie/main i386 libpython3-dev i386 3.11.8-1 [9600 B] Get: 255 http://deb.debian.org/debian trixie/main i386 python3.11-dev i386 3.11.9-1 [501 kB] Get: 256 http://deb.debian.org/debian trixie/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 257 http://deb.debian.org/debian trixie/main i386 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 258 http://deb.debian.org/debian trixie/main i386 libjs-sphinxdoc all 7.2.6-8 [150 kB] Get: 259 http://deb.debian.org/debian trixie/main i386 python3-dev i386 3.11.8-1 [26.1 kB] Get: 260 http://deb.debian.org/debian trixie/main i386 libboost-python1.83-dev i386 1.83.0-3 [392 kB] Get: 261 http://deb.debian.org/debian trixie/main i386 libboost-python-dev i386 1.83.0.2+b2 [3900 B] Get: 262 http://deb.debian.org/debian trixie/main i386 libboost-system1.83.0 i386 1.83.0-3 [230 kB] Get: 263 http://deb.debian.org/debian trixie/main i386 libboost-system1.83-dev i386 1.83.0-3 [231 kB] Get: 264 http://deb.debian.org/debian trixie/main i386 libboost-system-dev i386 1.83.0.2+b2 [3740 B] Get: 265 http://deb.debian.org/debian trixie/main i386 libboost-thread1.83.0 i386 1.83.0-3 [270 kB] Get: 266 http://deb.debian.org/debian trixie/main i386 libboost-thread1.83-dev i386 1.83.0-3 [279 kB] Get: 267 http://deb.debian.org/debian trixie/main i386 libboost-thread-dev i386 1.83.0.2+b2 [3632 B] Get: 268 http://deb.debian.org/debian trixie/main i386 libbrotli-dev i386 1.1.0-2+b3 [313 kB] Get: 269 http://deb.debian.org/debian trixie/main i386 libbz2-dev i386 1.0.8-5.1 [31.4 kB] Get: 270 http://deb.debian.org/debian trixie/main i386 libpng-dev i386 1.6.43-5 [369 kB] Get: 271 http://deb.debian.org/debian trixie/main i386 libfreetype-dev i386 2.13.2+dfsg-1+b4 [624 kB] Get: 272 http://deb.debian.org/debian trixie/main i386 libpkgconf3 i386 1.8.1-1+b2 [38.5 kB] Get: 273 http://deb.debian.org/debian trixie/main i386 pkgconf-bin i386 1.8.1-1+b2 [30.2 kB] Get: 274 http://deb.debian.org/debian trixie/main i386 pkgconf i386 1.8.1-1+b2 [26.2 kB] Get: 275 http://deb.debian.org/debian trixie/main i386 libfontconfig-dev i386 2.15.0-1.1 [428 kB] Get: 276 http://deb.debian.org/debian trixie/main i386 libffi-dev i386 3.4.6-1 [57.8 kB] Get: 277 http://deb.debian.org/debian trixie/main i386 libglib2.0-data all 2.80.2-2 [1267 kB] Get: 278 http://deb.debian.org/debian trixie/main i386 libglib2.0-bin i386 2.80.2-2 [127 kB] Get: 279 http://deb.debian.org/debian trixie/main i386 python3-packaging all 24.0-1 [45.5 kB] Get: 280 http://deb.debian.org/debian trixie/main i386 libglib2.0-dev-bin i386 2.80.2-2 [170 kB] Get: 281 http://deb.debian.org/debian trixie/main i386 libsepol-dev i386 3.5-2+b1 [384 kB] Get: 282 http://deb.debian.org/debian trixie/main i386 libpcre2-16-0 i386 10.42-4+b1 [244 kB] Get: 283 http://deb.debian.org/debian trixie/main i386 libpcre2-32-0 i386 10.42-4+b1 [233 kB] Get: 284 http://deb.debian.org/debian trixie/main i386 libpcre2-posix3 i386 10.42-4+b1 [55.8 kB] Get: 285 http://deb.debian.org/debian trixie/main i386 libpcre2-dev i386 10.42-4+b1 [759 kB] Get: 286 http://deb.debian.org/debian trixie/main i386 libselinux1-dev i386 3.5-2+b2 [166 kB] Get: 287 http://deb.debian.org/debian trixie/main i386 libmount-dev i386 2.40.1-4 [27.6 kB] Get: 288 http://deb.debian.org/debian trixie/main i386 libsysprof-capture-4-dev i386 46.0-1 [51.4 kB] Get: 289 http://deb.debian.org/debian trixie/main i386 libgirepository-2.0-0 i386 2.80.2-2 [141 kB] Get: 290 http://deb.debian.org/debian trixie/main i386 libglib2.0-dev i386 2.80.2-2 [1867 kB] Get: 291 http://deb.debian.org/debian trixie/main i386 libpixman-1-dev i386 0.42.2-1+b1 [581 kB] Get: 292 http://deb.debian.org/debian trixie/main i386 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get: 293 http://deb.debian.org/debian trixie/main i386 x11proto-dev all 2024.1-1 [603 kB] Get: 294 http://deb.debian.org/debian trixie/main i386 x11proto-core-dev all 2024.1-1 [3312 B] Get: 295 http://deb.debian.org/debian trixie/main i386 libice-dev i386 2:1.0.10-1+b1 [68.3 kB] Get: 296 http://deb.debian.org/debian trixie/main i386 libsm-dev i386 2:1.2.3-1+b1 [37.1 kB] Get: 297 http://deb.debian.org/debian trixie/main i386 libxau-dev i386 1:1.0.9-1+b1 [21.6 kB] Get: 298 http://deb.debian.org/debian trixie/main i386 libxdmcp-dev i386 1:1.1.2-3+b1 [41.5 kB] Get: 299 http://deb.debian.org/debian trixie/main i386 xtrans-dev all 1.4.0-1 [98.7 kB] Get: 300 http://deb.debian.org/debian trixie/main i386 libxcb1-dev i386 1.17.0-2 [186 kB] Get: 301 http://deb.debian.org/debian trixie/main i386 libx11-dev i386 2:1.8.7-1+b1 [904 kB] Get: 302 http://deb.debian.org/debian trixie/main i386 libxcb-render0-dev i386 1.17.0-2 [119 kB] Get: 303 http://deb.debian.org/debian trixie/main i386 libxcb-shm0-dev i386 1.17.0-2 [108 kB] Get: 304 http://deb.debian.org/debian trixie/main i386 libxext-dev i386 2:1.3.4-1+b1 [110 kB] Get: 305 http://deb.debian.org/debian trixie/main i386 libxrender-dev i386 1:0.9.10-1.1+b1 [36.9 kB] Get: 306 http://deb.debian.org/debian trixie/main i386 libcairo2-dev i386 1.18.0-3+b1 [43.2 kB] Get: 307 http://deb.debian.org/debian trixie/main i386 libsigc++-3.0-0 i386 3.6.0-2 [31.0 kB] Get: 308 http://deb.debian.org/debian trixie/main i386 libcairomm-1.16-1 i386 1.18.0-1+b1 [64.5 kB] Get: 309 http://deb.debian.org/debian trixie/main i386 libsigc++-3.0-dev i386 3.6.0-2 [51.2 kB] Get: 310 http://deb.debian.org/debian trixie/main i386 libcairomm-1.16-dev i386 1.18.0-1+b1 [64.4 kB] Get: 311 http://deb.debian.org/debian trixie/main i386 libccp4-data all 8.0.0-3 [62.5 kB] Get: 312 http://deb.debian.org/debian trixie/main i386 libccp4c0t64 i386 8.0.0-3 [95.5 kB] Get: 313 http://deb.debian.org/debian trixie/main i386 libgfortran5 i386 14-20240330-1 [735 kB] Get: 314 http://deb.debian.org/debian trixie/main i386 libmmdb2-0 i386 2.0.22-1+b1 [368 kB] Get: 315 http://deb.debian.org/debian trixie/main i386 libccp4f0t64 i386 8.0.0-3 [184 kB] Get: 316 http://deb.debian.org/debian trixie/main i386 libccp4-dev i386 8.0.0-3 [42.9 kB] Get: 317 http://deb.debian.org/debian trixie/main i386 sfftw2 i386 2.1.5-6+b1 [190 kB] Get: 318 http://deb.debian.org/debian trixie/main i386 libclipper2 i386 2.1.20201109-2+b2 [1183 kB] Get: 319 http://deb.debian.org/debian trixie/main i386 libmmdb2-dev i386 2.0.22-1+b1 [92.9 kB] Get: 320 http://deb.debian.org/debian trixie/main i386 sfftw-dev i386 2.1.5-6+b1 [229 kB] Get: 321 http://deb.debian.org/debian trixie/main i386 libclipper-dev i386 2.1.20201109-2+b2 [82.4 kB] Get: 322 http://deb.debian.org/debian trixie/main i386 libcoordgen3 i386 3.0.2-1+b1 [226 kB] Get: 323 http://deb.debian.org/debian trixie/main i386 libcurl3t64-gnutls i386 8.8.0-1 [469 kB] Get: 324 http://deb.debian.org/debian trixie/main i386 libcurl4-gnutls-dev i386 8.8.0-1 [593 kB] Get: 325 http://deb.debian.org/debian trixie/main i386 libdatrie-dev i386 0.2.13-3 [20.5 kB] Get: 326 http://deb.debian.org/debian trixie/main i386 libdeflate-dev i386 1.20-1 [56.0 kB] Get: 327 http://deb.debian.org/debian trixie/main i386 libdrm-common all 2.4.120-2 [7688 B] Get: 328 http://deb.debian.org/debian trixie/main i386 libdrm2 i386 2.4.120-2 [41.4 kB] Get: 329 http://deb.debian.org/debian trixie/main i386 libdrm-amdgpu1 i386 2.4.120-2 [24.4 kB] Get: 330 http://deb.debian.org/debian trixie/main i386 libdrm-intel1 i386 2.4.120-2 [66.5 kB] Get: 331 http://deb.debian.org/debian trixie/main i386 libdrm-nouveau2 i386 2.4.120-2 [20.8 kB] Get: 332 http://deb.debian.org/debian trixie/main i386 libdrm-radeon1 i386 2.4.120-2 [23.0 kB] Get: 333 http://deb.debian.org/debian trixie/main i386 libzstd-dev i386 1.5.5+dfsg2-2 [346 kB] Get: 334 http://deb.debian.org/debian trixie/main i386 libelf-dev i386 0.191-1+b1 [83.3 kB] Get: 335 http://deb.debian.org/debian trixie/main i386 libdw1t64 i386 0.191-1+b1 [277 kB] Get: 336 http://deb.debian.org/debian trixie/main i386 liblzma-dev i386 5.6.1+really5.4.5-1 [304 kB] Get: 337 http://deb.debian.org/debian trixie/main i386 libdw-dev i386 0.191-1+b1 [365 kB] Get: 338 http://deb.debian.org/debian trixie/main i386 libedit2 i386 3.1-20240517-1 [97.6 kB] Get: 339 http://deb.debian.org/debian trixie/main i386 libglvnd0 i386 1.7.0-1+b1 [44.4 kB] Get: 340 http://deb.debian.org/debian trixie/main i386 libwayland-server0 i386 1.22.0-2.1+b1 [34.8 kB] Get: 341 http://deb.debian.org/debian trixie/main i386 libxcb-randr0 i386 1.17.0-2 [118 kB] Get: 342 http://deb.debian.org/debian trixie/main i386 libgbm1 i386 24.0.8-1 [41.9 kB] Get: 343 http://deb.debian.org/debian trixie/main i386 libglapi-mesa i386 24.0.8-1 [37.0 kB] Get: 344 http://deb.debian.org/debian trixie/main i386 libx11-xcb1 i386 2:1.8.7-1+b1 [232 kB] Get: 345 http://deb.debian.org/debian trixie/main i386 libxcb-dri2-0 i386 1.17.0-2 [107 kB] Get: 346 http://deb.debian.org/debian trixie/main i386 libxcb-dri3-0 i386 1.17.0-2 [107 kB] Get: 347 http://deb.debian.org/debian trixie/main i386 libxcb-present0 i386 1.17.0-2 [105 kB] Get: 348 http://deb.debian.org/debian trixie/main i386 libxcb-sync1 i386 1.17.0-2 [109 kB] Get: 349 http://deb.debian.org/debian trixie/main i386 libxcb-xfixes0 i386 1.17.0-2 [109 kB] Get: 350 http://deb.debian.org/debian trixie/main i386 libxshmfence1 i386 1.3-1+b1 [9028 B] Get: 351 http://deb.debian.org/debian trixie/main i386 libegl-mesa0 i386 24.0.8-1 [128 kB] Get: 352 http://deb.debian.org/debian trixie/main i386 libegl1 i386 1.7.0-1+b1 [36.2 kB] Get: 353 http://deb.debian.org/debian trixie/main i386 libxcb-glx0 i386 1.17.0-2 [123 kB] Get: 354 http://deb.debian.org/debian trixie/main i386 libxxf86vm1 i386 1:1.1.4-1+b2 [21.7 kB] Get: 355 http://deb.debian.org/debian trixie/main i386 libvulkan1 i386 1.3.283.0-1 [134 kB] Get: 356 http://deb.debian.org/debian trixie/main i386 libz3-4 i386 4.8.12-3.1+b2 [7989 kB] Get: 357 http://deb.debian.org/debian trixie/main i386 libllvm17t64 i386 1:17.0.6-12 [27.7 MB] Get: 358 http://deb.debian.org/debian trixie/main i386 libsensors-config all 1:3.6.0-9 [14.6 kB] Get: 359 http://deb.debian.org/debian trixie/main i386 libsensors5 i386 1:3.6.0-9 [35.4 kB] Get: 360 http://deb.debian.org/debian trixie/main i386 libgl1-mesa-dri i386 24.0.8-1 [8462 kB] Get: 361 http://deb.debian.org/debian trixie/main i386 libglx-mesa0 i386 24.0.8-1 [158 kB] Get: 362 http://deb.debian.org/debian trixie/main i386 libglx0 i386 1.7.0-1+b1 [38.0 kB] Get: 363 http://deb.debian.org/debian trixie/main i386 libgl1 i386 1.7.0-1+b1 [82.7 kB] Get: 364 http://deb.debian.org/debian trixie/main i386 libglx-dev i386 1.7.0-1+b1 [15.8 kB] Get: 365 http://deb.debian.org/debian trixie/main i386 libgl-dev i386 1.7.0-1+b1 [101 kB] Get: 366 http://deb.debian.org/debian trixie/main i386 libegl-dev i386 1.7.0-1+b1 [19.5 kB] Get: 367 http://deb.debian.org/debian trixie/main i386 libglvnd-core-dev i386 1.7.0-1+b1 [13.4 kB] Get: 368 http://deb.debian.org/debian trixie/main i386 libgles1 i386 1.7.0-1+b1 [12.0 kB] Get: 369 http://deb.debian.org/debian trixie/main i386 libgles2 i386 1.7.0-1+b1 [16.8 kB] Get: 370 http://deb.debian.org/debian trixie/main i386 libgles-dev i386 1.7.0-1+b1 [50.8 kB] Get: 371 http://deb.debian.org/debian trixie/main i386 libopengl0 i386 1.7.0-1+b1 [29.5 kB] Get: 372 http://deb.debian.org/debian trixie/main i386 libopengl-dev i386 1.7.0-1+b1 [5368 B] Get: 373 http://deb.debian.org/debian trixie/main i386 libglvnd-dev i386 1.7.0-1+b1 [5140 B] Get: 374 http://deb.debian.org/debian trixie/main i386 libegl1-mesa-dev i386 24.0.8-1 [21.2 kB] Get: 375 http://deb.debian.org/debian trixie/main i386 libeigen3-dev all 3.4.0-4 [1041 kB] Get: 376 http://deb.debian.org/debian trixie/main i386 libepoxy-dev i386 1.5.10-1+b2 [127 kB] Get: 377 http://deb.debian.org/debian trixie/main i386 libfribidi-dev i386 1.0.13-3+b1 [112 kB] Get: 378 http://deb.debian.org/debian trixie/main i386 libgdk-pixbuf2.0-bin i386 2.42.12+dfsg-1 [18.5 kB] Get: 379 http://deb.debian.org/debian trixie/main i386 libjpeg62-turbo-dev i386 1:2.1.5-3 [303 kB] Get: 380 http://deb.debian.org/debian trixie/main i386 libjpeg-dev i386 1:2.1.5-3 [71.9 kB] Get: 381 http://deb.debian.org/debian trixie/main i386 libjbig-dev i386 2.1-6.1+b1 [31.0 kB] Get: 382 http://deb.debian.org/debian trixie/main i386 libwebpdecoder3 i386 1.4.0-0.1 [209 kB] Get: 383 http://deb.debian.org/debian trixie/main i386 libsharpyuv-dev i386 1.4.0-0.1 [117 kB] Get: 384 http://deb.debian.org/debian trixie/main i386 libwebp-dev i386 1.4.0-0.1 [459 kB] Get: 385 http://deb.debian.org/debian trixie/main i386 libtiffxx6 i386 4.5.1+git230720-4 [150 kB] Get: 386 http://deb.debian.org/debian trixie/main i386 liblerc-dev i386 4.0.0+ds-4+b1 [189 kB] Get: 387 http://deb.debian.org/debian trixie/main i386 libtiff-dev i386 4.5.1+git230720-4 [485 kB] Get: 388 http://deb.debian.org/debian trixie/main i386 libgdk-pixbuf-2.0-dev i386 2.42.12+dfsg-1 [52.4 kB] Get: 389 http://deb.debian.org/debian trixie/main i386 libglibmm-2.68-1t64 i386 2.80.0-1 [701 kB] Get: 390 http://deb.debian.org/debian trixie/main i386 libglibmm-2.68-dev i386 2.80.0-1 [464 kB] Get: 391 http://deb.debian.org/debian trixie/main i386 libglm-dev all 0.9.9.8+ds-7 [183 kB] Get: 392 http://deb.debian.org/debian trixie/main i386 libgraphene-1.0-dev i386 1.10.8-3+b1 [61.7 kB] Get: 393 http://deb.debian.org/debian trixie/main i386 libgraphite2-dev i386 1.3.14-2 [20.0 kB] Get: 394 http://deb.debian.org/debian trixie/main i386 libgslcblas0 i386 2.7.1+dfsg-6+b1 [97.7 kB] Get: 395 http://deb.debian.org/debian trixie/main i386 libgsl27 i386 2.7.1+dfsg-6+b1 [920 kB] Get: 396 http://deb.debian.org/debian trixie/main i386 libgsl-dev i386 2.7.1+dfsg-6+b1 [1169 kB] Get: 397 http://deb.debian.org/debian trixie/main i386 libharfbuzz-icu0 i386 8.3.0-2+b1 [1769 kB] Get: 398 http://deb.debian.org/debian trixie/main i386 libharfbuzz-subset0 i386 8.3.0-2+b1 [2273 kB] Get: 399 http://deb.debian.org/debian trixie/main i386 libharfbuzz-cairo0 i386 8.3.0-2+b1 [1799 kB] Get: 400 http://deb.debian.org/debian trixie/main i386 libharfbuzz-dev i386 8.3.0-2+b1 [1896 kB] Get: 401 http://deb.debian.org/debian trixie/main i386 libthai-dev i386 0.1.29-2 [26.4 kB] Get: 402 http://deb.debian.org/debian trixie/main i386 libxft-dev i386 2.3.6-1+b1 [74.9 kB] Get: 403 http://deb.debian.org/debian trixie/main i386 pango1.0-tools i386 1.52.2+ds-1 [43.0 kB] Get: 404 http://deb.debian.org/debian trixie/main i386 libpango1.0-dev i386 1.52.2+ds-1 [153 kB] Get: 405 http://deb.debian.org/debian trixie/main i386 libwayland-cursor0 i386 1.22.0-2.1+b1 [12.0 kB] Get: 406 http://deb.debian.org/debian trixie/main i386 libwayland-bin i386 1.22.0-2.1+b1 [22.0 kB] Get: 407 http://deb.debian.org/debian trixie/main i386 libwayland-dev i386 1.22.0-2.1+b1 [70.6 kB] Get: 408 http://deb.debian.org/debian trixie/main i386 libxcomposite1 i386 1:0.4.5-1+b1 [15.2 kB] Get: 409 http://deb.debian.org/debian trixie/main i386 libxfixes-dev i386 1:6.0.0-2+b1 [22.9 kB] Get: 410 http://deb.debian.org/debian trixie/main i386 libxcomposite-dev i386 1:0.4.5-1+b1 [18.7 kB] Get: 411 http://deb.debian.org/debian trixie/main i386 libxcursor-dev i386 1:1.2.1-1+b1 [49.4 kB] Get: 412 http://deb.debian.org/debian trixie/main i386 libxdamage-dev i386 1:1.1.6-1+b1 [15.5 kB] Get: 413 http://deb.debian.org/debian trixie/main i386 libxi-dev i386 2:1.8.1-1 [244 kB] Get: 414 http://deb.debian.org/debian trixie/main i386 libxinerama-dev i386 2:1.1.4-3+b1 [18.6 kB] Get: 415 http://deb.debian.org/debian trixie/main i386 libxkbcommon-dev i386 1.6.0-1+b1 [53.0 kB] Get: 416 http://deb.debian.org/debian trixie/main i386 libxrandr-dev i386 2:1.5.4-1 [45.8 kB] Get: 417 http://deb.debian.org/debian trixie/main i386 libvulkan-dev i386 1.3.283.0-1 [1350 kB] Get: 418 http://deb.debian.org/debian trixie/main i386 wayland-protocols all 1.36-1 [84.6 kB] Get: 419 http://deb.debian.org/debian trixie/main i386 libgtk-4-dev i386 4.12.5+ds-6+b1 [942 kB] Get: 420 http://deb.debian.org/debian trixie/main i386 libpangomm-2.48-1t64 i386 2.52.0-1 [86.6 kB] Get: 421 http://deb.debian.org/debian trixie/main i386 libgtkmm-4.0-0 i386 4.10.0-4+b2 [1025 kB] Get: 422 http://deb.debian.org/debian trixie/main i386 libpangomm-2.48-dev i386 2.52.0-1 [71.0 kB] Get: 423 http://deb.debian.org/debian trixie/main i386 libgtkmm-4.0-dev i386 4.10.0-4+b2 [513 kB] Get: 424 http://deb.debian.org/debian trixie/main i386 liblapack3 i386 3.12.0-3 [2167 kB] Get: 425 http://deb.debian.org/debian trixie/main i386 libmaeparser1 i386 1.3.1-1+b1 [99.9 kB] Get: 426 http://deb.debian.org/debian trixie/main i386 libogg0 i386 1.3.5-3+b1 [24.5 kB] Get: 427 http://deb.debian.org/debian trixie/main i386 libogg-dev i386 1.3.5-3+b1 [201 kB] Get: 428 http://deb.debian.org/debian trixie/main i386 librdkit1t64 i386 202309.3-4 [5104 kB] Get: 429 http://deb.debian.org/debian trixie/main i386 librdkit-dev i386 202309.3-4 [415 kB] Get: 430 http://deb.debian.org/debian trixie/main i386 libsqlite3-dev i386 3.45.3-1 [1173 kB] Get: 431 http://deb.debian.org/debian trixie/main i386 libssm2 i386 1.4.0-2+b2 [87.9 kB] Get: 432 http://deb.debian.org/debian trixie/main i386 libssm-dev i386 1.4.0-2+b2 [15.2 kB] Get: 433 http://deb.debian.org/debian trixie/main i386 libvorbis0a i386 1.3.7-2 [88.3 kB] Get: 434 http://deb.debian.org/debian trixie/main i386 libvorbisenc2 i386 1.3.7-2 [69.5 kB] Get: 435 http://deb.debian.org/debian trixie/main i386 libvorbisfile3 i386 1.3.7-2 [23.7 kB] Get: 436 http://deb.debian.org/debian trixie/main i386 libvorbis-dev i386 1.3.7-2 [327 kB] Get: 437 http://deb.debian.org/debian trixie/main i386 robin-map-dev all 1.3.0-1 [29.8 kB] Get: 438 http://deb.debian.org/debian trixie/main i386 nanobind-dev all 1.9.2-3 [123 kB] Get: 439 http://deb.debian.org/debian trixie/main i386 python3-gi i386 3.48.2-1 [289 kB] Get: 440 http://deb.debian.org/debian trixie/main i386 python-gi-dev i386 3.48.2-1 [13.2 kB] Get: 441 http://deb.debian.org/debian trixie/main i386 python3-certifi all 2023.11.17-1 [155 kB] Get: 442 http://deb.debian.org/debian trixie/main i386 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get: 443 http://deb.debian.org/debian trixie/main i386 python3-charset-normalizer all 3.3.2-1 [51.6 kB] Get: 444 http://deb.debian.org/debian trixie/main i386 python3-idna all 3.6-2 [37.0 kB] Get: 445 http://deb.debian.org/debian trixie/main i386 python3-numpy i386 1:1.26.4+ds-10 [5468 kB] Get: 446 http://deb.debian.org/debian trixie/main i386 rdkit-data all 202309.3-4 [13.1 MB] Get: 447 http://deb.debian.org/debian trixie/main i386 python3-rdkit i386 202309.3-4 [4362 kB] Get: 448 http://deb.debian.org/debian trixie/main i386 python3-six all 1.16.0-6 [16.3 kB] Get: 449 http://deb.debian.org/debian trixie/main i386 python3-urllib3 all 1.26.18-2 [116 kB] Get: 450 http://deb.debian.org/debian trixie/main i386 python3-requests all 2.31.0+dfsg-2 [68.7 kB] Get: 451 http://deb.debian.org/debian trixie/main i386 sharutils i386 1:4.15.2-9 [262 kB] Get: 452 http://deb.debian.org/debian trixie/main i386 swig i386 4.2.1-1 [1499 kB] Get: 453 http://deb.debian.org/debian trixie/main i386 tao-pegtl-dev all 3.2.7-1 [69.4 kB] Fetched 268 MB in 6s (43.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1:i386. (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 ... 19683 files and directories currently installed.) Preparing to unpack .../0-libapparmor1_3.0.13-2_i386.deb ... Unpacking libapparmor1:i386 (3.0.13-2) ... Selecting previously unselected package dmsetup. Preparing to unpack .../1-dmsetup_2%3a1.02.196-1+b1_i386.deb ... Unpacking dmsetup (2:1.02.196-1+b1) ... Selecting previously unselected package libdevmapper1.02.1:i386. Preparing to unpack .../2-libdevmapper1.02.1_2%3a1.02.196-1+b1_i386.deb ... Unpacking libdevmapper1.02.1:i386 (2:1.02.196-1+b1) ... Selecting previously unselected package libjson-c5:i386. Preparing to unpack .../3-libjson-c5_0.17-1+b1_i386.deb ... Unpacking libjson-c5:i386 (0.17-1+b1) ... Selecting previously unselected package libcryptsetup12:i386. Preparing to unpack .../4-libcryptsetup12_2%3a2.7.2-2_i386.deb ... Unpacking libcryptsetup12:i386 (2:2.7.2-2) ... Selecting previously unselected package libfdisk1:i386. Preparing to unpack .../5-libfdisk1_2.40.1-4_i386.deb ... Unpacking libfdisk1:i386 (2.40.1-4) ... Selecting previously unselected package libsystemd-shared:i386. Preparing to unpack .../6-libsystemd-shared_256~rc3-7_i386.deb ... Unpacking libsystemd-shared:i386 (256~rc3-7) ... Selecting previously unselected package systemd. Preparing to unpack .../7-systemd_256~rc3-7_i386.deb ... Unpacking systemd (256~rc3-7) ... Setting up libapparmor1:i386 (3.0.13-2) ... Setting up libjson-c5:i386 (0.17-1+b1) ... Setting up libfdisk1:i386 (2.40.1-4) ... Setting up libsystemd-shared:i386 (256~rc3-7) ... Setting up libdevmapper1.02.1:i386 (2:1.02.196-1+b1) ... Setting up libcryptsetup12:i386 (2:2.7.2-2) ... Setting up systemd (256~rc3-7) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring. 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Setting up libboost-system1.83-dev:i386 (1.83.0-3) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6.3) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/i386-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libssh2-1t64:i386 (1.11.0-5) ... Setting up libopengl-dev:i386 (1.7.0-1+b1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libcoordgen3:i386 (3.0.2-1+b1) ... Setting up gemmi (0.6.5+ds-1) ... Setting up sharutils (1:4.15.2-9) ... Setting up dbus-system-bus-common (1.14.10-4) ... Setting up libasound2-dev:i386 (1.2.11-1+b1) ... Setting up libde265-0:i386 (1.0.15-1+b1) ... Setting up libsharpyuv-dev:i386 (1.4.0-0.1) ... Setting up openssl (3.2.1-3) ... Setting up libwebpmux3:i386 (1.4.0-0.1) ... Setting up libbsd0:i386 (0.12.2-1) ... Setting up libtiffxx6:i386 (4.5.1+git230720-4) ... Setting up libdeflate-dev:i386 (1.20-1) ... Setting up libdrm-common (2.4.120-2) ... Setting up readline-common (8.2-4) ... Setting up libicu-dev:i386 (72.1-4+b1) ... Setting up libxml2:i386 (2.9.14+dfsg-1.3+b3) ... Setting up dbus-bin (1.14.10-4+b1) ... Setting up libbrotli-dev:i386 (1.1.0-2+b3) ... Setting up libgraphene-1.0-0:i386 (1.10.8-3+b1) ... Setting up libblas-dev:i386 (3.12.0-3) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so to provide /usr/lib/i386-linux-gnu/libblas.so (libblas.so-i386-linux-gnu) in auto mode Setting up tao-pegtl-dev (3.2.7-1) ... Setting up libvorbisenc2:i386 (1.3.7-2) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libbz2-dev:i386 (1.0.8-5.1) ... Setting up libxkbcommon0:i386 (1.6.0-1+b1) ... Setting up libwayland-client0:i386 (1.22.0-2.1+b1) ... Setting up gir1.2-graphene-1.0:i386 (1.10.8-3+b1) ... 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 (2024.1-1) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up libblkid-dev:i386 (2.40.1-4) ... Setting up libice6:i386 (2:1.0.10-1+b1) ... Setting up libxdmcp6:i386 (1:1.1.2-3+b1) ... Setting up liblapack3:i386 (3.12.0-3) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up libxcb1:i386 (1.17.0-2) ... Setting up gettext (0.21-14+b1) ... Setting up libgsl-dev (2.7.1+dfsg-6+b1) ... Setting up libxcb-xfixes0:i386 (1.17.0-2) ... Setting up libssm2:i386 (1.4.0-2+b2) ... Setting up libxau-dev:i386 (1:1.0.9-1+b1) ... Setting up libboost-chrono1.83-dev:i386 (1.83.0-3) ... Setting up libglibmm-2.68-1t64:i386 (2.80.0-1) ... Setting up libpcre2-dev:i386 (10.42-4+b1) ... Setting up libice-dev:i386 (2:1.0.10-1+b1) ... Setting up libtool (2.4.7-7) ... Setting up libgirepository-2.0-0:i386 (2.80.2-2) ... Setting up libxcb-render0:i386 (1.17.0-2) ... Setting up libselinux1-dev:i386 (3.5-2+b2) ... Setting up libevent-pthreads-2.1-7t64:i386 (2.1.12-stable-10) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libfribidi-dev:i386 (1.0.13-3+b1) ... Setting up libxcb-glx0:i386 (1.17.0-2) ... Setting up libwebpdemux2:i386 (1.4.0-0.1) ... Setting up libxkbcommon-dev:i386 (1.6.0-1+b1) ... Setting up libedit2:i386 (3.1-20240517-1) ... Setting up libboost-system-dev:i386 (1.83.0.2+b2) ... Setting up libpng-dev:i386 (1.6.43-5) ... Setting up libavahi-common3:i386 (0.8-13+b2) ... Setting up libboost-serialization1.83-dev:i386 (1.83.0-3) ... Setting up libjpeg-dev:i386 (1:2.1.5-3) ... Setting up libjbig-dev:i386 (2.1-6.1+b1) ... Setting up libcloudproviders0:i386 (0.3.6-1) ... Setting up libglib2.0-bin (2.80.2-2) ... Setting up libxcb-shm0:i386 (1.17.0-2) ... Setting up dbus-daemon (1.14.10-4+b1) ... Setting up libccp4f0t64:i386 (8.0.0-3) ... Setting up libldap-2.5-0:i386 (2.5.17+dfsg-1) ... Setting up libcolord2:i386 (1.4.7-1+b1) ... Setting up pkgconf:i386 (1.8.1-1+b2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnl-route-3-200:i386 (3.7.0-0.3) ... Setting up libxcb-present0:i386 (1.17.0-2) ... Setting up libdconf1:i386 (0.40.0-4+b2) ... Setting up dh-autoreconf (20) ... Setting up libthai0:i386 (0.1.29-2) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libvorbisfile3:i386 (1.3.7-2) ... Setting up libsigc++-3.0-dev:i386 (3.6.0-2) ... Setting up libxdmcp-dev:i386 (1:1.1.2-3+b1) ... Setting up libwayland-bin (1.22.0-2.1+b1) ... Setting up libwebp-dev:i386 (1.4.0-0.1) ... Setting up libllvm17t64:i386 (1:17.0.6-12) ... Setting up libfreetype6:i386 (2.13.2+dfsg-1+b4) ... Setting up libtiff-dev:i386 (4.5.1+git230720-4) ... Setting up libxcb-sync1:i386 (1.17.0-2) ... Setting up gir1.2-girepository-2.0:i386 (1.80.1-3) ... Setting up libboost-date-time1.83-dev:i386 (1.83.0-3) ... Setting up x11proto-core-dev (2024.1-1) ... Setting up dbus (1.14.10-4+b1) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5) ... Warning: program compiled against libxml 212 using older 209 Setting up libeigen3-dev (3.4.0-4) ... Setting up libgssapi-krb5-2:i386 (1.20.1-6+b1) ... Setting up libelf-dev:i386 (0.191-1+b1) ... Setting up libboost-regex1.83-dev:i386 (1.83.0-3) ... Setting up ucf (3.0043+nmu1) ... Setting up libjs-sphinxdoc (7.2.6-8) ... Setting up libreadline8t64:i386 (8.2-4) ... Setting up libssm-dev:i386 (1.4.0-2+b2) ... Setting up libxcb-dri2-0:i386 (1.17.0-2) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libdrm2:i386 (2.4.120-2) ... Setting up libdatrie-dev:i386 (0.2.13-3) ... Setting up groff-base (1.23.0-4) ... Setting up libwayland-cursor0:i386 (1.22.0-2.1+b1) ... Setting up libxcb-randr0:i386 (1.17.0-2) ... Setting up libpam-systemd:i386 (256~rc3-7) ... Setting up libx11-6:i386 (2:1.8.7-1+b1) ... Setting up libharfbuzz0b:i386 (8.3.0-2+b1) ... Setting up libgdk-pixbuf-2.0-0:i386 (2.42.12+dfsg-1) ... Setting up libfontconfig1:i386 (2.15.0-1.1) ... Setting up libxcomposite1:i386 (1:0.4.5-1+b1) ... Setting up libsm6:i386 (2:1.2.3-1+b1) ... Setting up libarchive13t64:i386 (3.7.2-2) ... Setting up libavahi-client3:i386 (0.8-13+b2) ... Setting up libmount-dev:i386 (2.40.1-4) ... Setting up libdrm-amdgpu1:i386 (2.4.120-2) ... Setting up libboost-thread1.83-dev:i386 (1.83.0-3) ... Setting up libvorbis-dev:i386 (1.3.7-2) ... Setting up libxcb-dri3-0:i386 (1.17.0-2) ... Setting up libpaper1:i386 (1.1.29+b1) ... Creating config file /etc/papersize with new version Setting up gtk-update-icon-cache (3.24.42-1) ... Setting up libx11-xcb1:i386 (2:1.8.7-1+b1) ... Setting up libibverbs1:i386 (50.0-2+b1) ... Setting up fontconfig (2.15.0-1.1) ... Regenerating fonts cache... done. Setting up libdrm-nouveau2:i386 (2.4.120-2) ... Setting up libharfbuzz-icu0:i386 (8.3.0-2+b1) ... Setting up libxdamage1:i386 (1:1.1.6-1+b1) ... Setting up libxcb1-dev:i386 (1.17.0-2) ... Setting up libxrender1:i386 (1:0.9.10-1.1+b1) ... Setting up gir1.2-gdkpixbuf-2.0:i386 (2.42.12+dfsg-1) ... Setting up libcurl4t64:i386 (8.8.0-1) ... Setting up libccp4-dev:i386 (8.0.0-3) ... Setting up libgbm1:i386 (24.0.8-1) ... Setting up libsm-dev:i386 (2:1.2.3-1+b1) ... Setting up libdrm-radeon1:i386 (2.4.120-2) ... Setting up libboost-iostreams1.83-dev:i386 (1.83.0-3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:i386 (3.11.9-1) ... Setting up nanobind-dev (1.9.2-3) ... Setting up libpango-1.0-0:i386 (1.52.2+ds-1) ... Setting up libdrm-intel1:i386 (2.4.120-2) ... Setting up libgl1-mesa-dri:i386 (24.0.8-1) ... Setting up libpython3.11t64:i386 (3.11.9-1) ... Setting up libx11-dev:i386 (2:1.8.7-1+b1) ... Setting up libcurl3t64-gnutls:i386 (8.8.0-1) ... Setting up libxext6:i386 (2:1.3.4-1+b1) ... Setting up bc (1.07.1-4) ... Setting up libharfbuzz-gobject0:i386 (8.3.0-2+b1) ... Setting up libboost-iostreams-dev:i386 (1.83.0.2+b2) ... Setting up libcurl4-gnutls-dev:i386 (8.8.0-1) ... Setting up xfonts-utils (1:7.7+6) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libwayland-dev:i386 (1.22.0-2.1+b1) ... Setting up libdw-dev:i386 (0.191-1+b1) ... Setting up libcairo2:i386 (1.18.0-3+b1) ... Setting up libxxf86vm1:i386 (1:1.1.4-1+b2) ... Setting up libfreetype-dev:i386 (2.13.2+dfsg-1+b4) ... Setting up libxnvctrl0:i386 (535.171.04-1) ... Setting up libcairomm-1.16-1:i386 (1.18.0-1+b1) ... Setting up libxcb-shm0-dev:i386 (1.17.0-2) ... Setting up dbus-user-session (1.14.10-4+b1) ... Setting up libegl-mesa0:i386 (24.0.8-1) ... Setting up libharfbuzz-cairo0:i386 (8.3.0-2+b1) ... Setting up adwaita-icon-theme (46.0-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libxfixes3:i386 (1:6.0.0-2+b1) ... Setting up libpython3.11-dev:i386 (3.11.9-1) ... Setting up libxinerama1:i386 (2:1.1.4-3+b1) ... Setting up libxt6t64:i386 (1:1.2.1-1.2) ... Setting up libxrandr2:i386 (2:1.5.4-1) ... Setting up libxcb-render0-dev:i386 (1.17.0-2) ... Setting up libxext-dev:i386 (2:1.3.4-1+b1) ... Setting up libthai-dev:i386 (0.1.29-2) ... Setting up libgdk-pixbuf2.0-bin (2.42.12+dfsg-1) ... Setting up libegl1:i386 (1.7.0-1+b1) ... Setting up libharfbuzz-subset0:i386 (8.3.0-2+b1) ... Setting up cmake (3.29.3-1+b2) ... Setting up librdmacm1t64:i386 (50.0-2+b1) ... Setting up libcairo-gobject2:i386 (1.18.0-3+b1) ... Setting up libpangoft2-1.0-0:i386 (1.52.2+ds-1) ... Setting up libxrender-dev:i386 (1:0.9.10-1.1+b1) ... Setting up libcups2t64:i386 (2.4.7-1.2+b1) ... Setting up libboost-thread-dev:i386 (1.83.0.2+b2) ... Setting up libpangocairo-1.0-0:i386 (1.52.2+ds-1) ... Setting up libpython3-stdlib:i386 (3.11.8-1) ... Setting up libcairo-script-interpreter2:i386 (1.18.0-3+b1) ... Setting up libfabric1:i386 (1.17.0-3+b1) ... Setting up python3.11 (3.11.9-1) ... Setting up libxft2:i386 (2.3.6-1+b1) ... Setting up gir1.2-freedesktop:i386 (1.80.1-3) ... Setting up libglx-mesa0:i386 (24.0.8-1) ... Setting up libpython3-dev:i386 (3.11.8-1) ... Setting up libpangoxft-1.0-0:i386 (1.52.2+ds-1) ... Setting up libxi6:i386 (2:1.8.1-1) ... Setting up libglx0:i386 (1.7.0-1+b1) ... Setting up librdkit1t64 (202309.3-4) ... Setting up libfontconfig-dev:i386 (2.15.0-1.1) ... Setting up python3.11-dev (3.11.9-1) ... Setting up libxcursor1:i386 (1:1.2.1-1+b1) ... Setting up pango1.0-tools (1.52.2+ds-1) ... Setting up debhelper (13.15.3) ... Setting up dconf-service (0.40.0-4+b2) ... Setting up python3 (3.11.8-1) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up libhwloc-plugins:i386 (2.10.0-1+b1) ... Setting up gir1.2-harfbuzz-0.0:i386 (8.3.0-2+b1) ... Setting up libxfixes-dev:i386 (1:6.0.0-2+b1) ... Setting up python3-six (1.16.0-6) ... Setting up gir1.2-pango-1.0:i386 (1.52.2+ds-1) ... Setting up libxrandr-dev:i386 (2:1.5.4-1) ... Setting up python3-packaging (24.0-1) ... Setting up libgl1:i386 (1.7.0-1+b1) ... Setting up python3-certifi (2023.11.17-1) ... Setting up python3-gi (3.48.2-1) ... Setting up gir1.2-freedesktop-dev:i386 (1.80.1-3) ... Setting up librdkit-dev (202309.3-4) ... Setting up python3-idna (3.6-2) ... Setting up libxinerama-dev:i386 (2:1.1.4-3+b1) ... Setting up libopenmpi3t64:i386 (4.1.6-13.3) ... Setting up python3-urllib3 (1.26.18-2) ... Setting up libglx-dev:i386 (1.7.0-1+b1) ... Setting up libxi-dev:i386 (2:1.8.1-1) ... Setting up python3-lib2to3 (3.12.3-3.1) ... Setting up libpangomm-2.48-1t64:i386 (2.52.0-1) ... Setting up libgl-dev:i386 (1.7.0-1+b1) ... Setting up libxft-dev:i386 (2.3.6-1+b1) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.12.3-3.1) ... Setting up libxdamage-dev:i386 (1:1.1.6-1+b1) ... Setting up libgs10-common (10.03.1~dfsg-1) ... Setting up libglib2.0-dev-bin (2.80.2-2) ... Setting up libvulkan-dev:i386 (1.3.283.0-1) ... Setting up python3-setuptools (68.1.2-2) ... Setting up dconf-gsettings-backend:i386 (0.40.0-4+b2) ... Setting up libegl-dev:i386 (1.7.0-1+b1) ... Setting up libxcomposite-dev:i386 (1:0.4.5-1+b1) ... Setting up python3-charset-normalizer (3.3.2-1) ... Setting up libxcursor-dev:i386 (1:1.2.1-1+b1) ... Setting up libepoxy-dev:i386 (1.5.10-1+b2) ... Setting up sfftw2 (2.1.5-6+b1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up fftw2 (2.1.5-6+b1) ... Setting up libglib2.0-dev:i386 (2.80.2-2) ... Setting up python3-dev (3.11.8-1) ... Setting up python3-requests (2.31.0+dfsg-2) ... Setting up libboost-python1.83-dev (1.83.0-3) ... Setting up sfftw-dev (2.1.5-6+b1) ... Setting up libclipper2:i386 (2.1.20201109-2+b2) ... Setting up python3-numpy (1:1.26.4+ds-10) ... Setting up libgraphene-1.0-dev (1.10.8-3+b1) ... Setting up libcairo2-dev:i386 (1.18.0-3+b1) ... Setting up libglibmm-2.68-dev:i386 (2.80.0-1) ... Setting up libgtk-4-common (4.12.5+ds-6) ... Setting up libcairomm-1.16-dev:i386 (1.18.0-1+b1) ... Setting up libgles-dev:i386 (1.7.0-1+b1) ... Setting up fftw-dev (2.1.5-6+b1) ... Setting up libgs10:i386 (10.03.1~dfsg-1) ... Setting up dh-python (6.20240422) ... Setting up libgdk-pixbuf-2.0-dev:i386 (2.42.12+dfsg-1) ... Setting up python-gi-dev (3.48.2-1) ... Setting up libharfbuzz-dev:i386 (8.3.0-2+b1) ... Setting up libglvnd-dev:i386 (1.7.0-1+b1) ... Setting up ghostscript (10.03.1~dfsg-1) ... Setting up libclipper-dev:i386 (2.1.20201109-2+b2) ... Setting up libboost-python-dev (1.83.0.2+b2) ... Setting up python3-rdkit (202309.3-4) ... Setting up libpango1.0-dev:i386 (1.52.2+ds-1) ... Setting up libgtk-4-1:i386 (4.12.5+ds-6+b1) ... Setting up libpangomm-2.48-dev:i386 (2.52.0-1) ... Setting up libegl1-mesa-dev:i386 (24.0.8-1) ... Setting up gir1.2-gtk-4.0:i386 (4.12.5+ds-6+b1) ... Setting up libgtk-4-dev:i386 (4.12.5+ds-6+b1) ... Setting up libgtkmm-4.0-0:i386 (4.10.0-4+b2) ... Setting up libgtkmm-4.0-dev:i386 (4.10.0-4+b2) ... Setting up libheif-plugin-dav1d:i386 (1.17.6-1+b2) ... Setting up libheif-plugin-libde265:i386 (1.17.6-1+b2) ... Setting up libheif1:i386 (1.17.6-1+b2) ... Setting up libmagickcore-6.q16-7t64:i386 (8:6.9.12.98+dfsg1-5.2) ... Setting up libmagickwand-6.q16-7t64:i386 (8:6.9.12.98+dfsg1-5.2) ... Setting up imagemagick-6.q16 (8:6.9.12.98+dfsg1-5.2) ... update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode Setting up imagemagick (8:6.9.12.98+dfsg1-5.2) ... Processing triggers for libc-bin (2.38-11) ... Processing triggers for systemd (256~rc3-7) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 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/reproducible-path/coot-1.1.08+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../coot_1.1.08+dfsg-3_source.changes dpkg-buildpackage: info: source package coot dpkg-buildpackage: info: source version 1.1.08+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg' dh_auto_clean --buildsystem cmake make[1]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg' dh_clean debian/rules binary dh binary dh_update_autotools_config cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead cp: warning: behavior of -n is non-portable and may change in future; use --update=none instead dh_autoreconf ./get-the-git-commit-count.sh: line 1: git: command not found ./get-the-git-commit.sh: line 2: git: command not found ./get-the-git-commit-count.sh: line 1: git: command not found ./get-the-git-commit.sh: line 2: git: command not found libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'macros'. libtoolize: copying file 'macros/libtool.m4' libtoolize: copying file 'macros/ltoptions.m4' libtoolize: copying file 'macros/ltsugar.m4' libtoolize: copying file 'macros/ltversion.m4' libtoolize: copying file 'macros/lt~obsolete.m4' ./get-the-git-commit-count.sh: line 1: git: command not found ./get-the-git-commit.sh: line 2: git: command not found ./get-the-git-commit-count.sh: line 1: git: command not found ./get-the-git-commit.sh: line 2: git: command not found ./get-the-git-commit-count.sh: line 1: git: command not found ./get-the-git-commit.sh: line 2: git: command not found configure.ac:41: installing './compile' configure.ac:31: installing './missing' MoleculesToTriangles/CXXClasses/Makefile.am: installing './depcomp' api/Makefile.am:112: installing './py-compile' debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg' dh_auto_configure -- --with-enhanced-ligand-tools --disable-static --with-gemmi=/usr/lib/i386-linux-gnu --with-libdw --with-sound ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --with-enhanced-ligand-tools --disable-static --with-gemmi=/usr/lib/i386-linux-gnu --with-libdw --with-sound checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu checking how to print strings... printf checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for file... file checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking which libtool initialization strategy to adopt... AC-PROG-LIBTOOL checking what warning flags to pass to the C compiler... -Wall -Wunused checking what language compliance flags to pass to the C compiler... checking what warning flags to pass to the C++ compiler... -Wall -Wno-unused checking what language compliance flags to pass to the C++ compiler... checking for sys/stdtypes.h... no checking for OpenMP flag of C compiler... -fopenmp checking whether g++ supports C++11 features by default... yes checking for std::thread in thread... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for glib-2.0... yes checking if this is MINGW on Windows... no checking if this is msys2 windows 64... no checking for libpng >= 1.2... yes checking for cairo >= 1.14... yes checking for SQLite3... yes checking for libdw >= 0.20... yes checking for mmdb2... yes checking for ssm... yes checking for non-prefixed single-precision FFTW2 (fftw.h)... no yes checking for Clipper... yes checking for gsl... yes checking for cos in -lm... yes checking for cblas_dgemm in -lgslcblas... yes checking for gsl_blas_dgemm in -lgsl... yes checking for glm >= 0.9.9... yes checking for gtk4 >= 4.4... yes checking for epoxy >= 1.5... yes checking for a Python interpreter with version >= 3.7... python3 checking for python3... /usr/bin/python3 checking for python3 version... 3.11 checking for python3 platform... linux checking for python3 script directory... ${prefix}/lib/python3/dist-packages checking for python3 extension module directory... ${exec_prefix}/lib/python3/dist-packages checking for python3.11... (cached) /usr/bin/python3 checking for a version of Python >= '2.1.0'... yes checking for the sysconfig Python package... yes checking for Python include path... -I/usr/include/python3.11 checking for Python library path... -L/usr/lib/i386-linux-gnu -lpython3.11 checking for Python site-packages path... /usr/lib/python3.11/site-packages checking for Python platform specific site-packages path... /usr/lib/python3.11/site-packages checking python extra libraries... -ldl -lm checking python extra linking flags... -Xlinker -export-dynamic -Wl,-O1 -Wl,-Bsymbolic-functions checking consistency of all components of python development environment... yes checking python3 module: requests... yes checking for pygobject-3.0 >= 3.36... yes checking for boostlib >= (102000)... yes checking whether the Boost::Thread library is available... yes checking for exit in -lboost_thread... yes checking whether the Boost::Python library is available... yes checking whether boost_python is the correct library... no checking whether boost_python311 is the correct library... yes checking for RDKit in /usr OK, good we found RDKit in /usr ENHANCED_LIGAND_TOOLS_CPPFLAGS -DMAKE_ENHANCED_LIGAND_TOOLS checking for GEMMI... yes checking build type... Linux-x86_64-debian-trixie-sid-gtk4 checking for sound... yes checking for vorbisfile >= 1.2... yes checking for alsa >= 1.2... yes Not using MySQL database checking for curl >= 7.9.7... 8.8.0 checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating macros/Makefile config.status: creating pdb-templates/Makefile config.status: creating scheme/Makefile config.status: creating python/Makefile config.status: creating compat/Makefile config.status: creating utils/Makefile config.status: creating coot-utils/Makefile config.status: creating protein_db/Makefile config.status: creating ccp4mg-utils/Makefile config.status: creating coords/Makefile config.status: creating db-main/Makefile config.status: creating density-contour/Makefile config.status: creating angles/Makefile config.status: creating mini-mol/Makefile config.status: creating skeleton/Makefile config.status: creating ligand/Makefile config.status: creating geometry/Makefile config.status: creating ideal/Makefile config.status: creating build/Makefile config.status: creating analysis/Makefile config.status: creating high-res/Makefile config.status: creating cootaneer/Makefile config.status: creating cootilus/Makefile config.status: creating greg-tests/Makefile config.status: creating python-tests/Makefile config.status: creating lidia-core/Makefile config.status: creating doc/Makefile config.status: creating validation-graphs/Makefile config.status: creating python/coot_load_modules.py config.status: creating data/Makefile config.status: creating data/rama-coeffs/Makefile config.status: creating data/metal/Makefile config.status: creating data/cho-models/Makefile config.status: creating data/cho-acedrg/Makefile config.status: creating glTF/Makefile config.status: creating pixmaps/Makefile config.status: creating pixmaps/icons/Makefile config.status: creating textures/Makefile config.status: creating sounds/Makefile config.status: creating rama-data/Makefile config.status: creating man/Makefile config.status: creating api/Makefile config.status: creating pli/Makefile config.status: creating pyrogen/Makefile config.status: creating pyrogen/pyrogen config.status: creating layla/Makefile config.status: creating MoleculesToTriangles/Makefile config.status: creating MoleculesToTriangles/CXXSurface/Makefile config.status: creating MoleculesToTriangles/CXXSurface/MoleculesToTrianglesCXXSurface.pc config.status: creating MoleculesToTriangles/CXXClasses/Makefile config.status: creating MoleculesToTriangles/CXXClasses/MoleculesToTrianglesCXXClasses.pc config.status: creating auxil/Makefile config.status: creating auxil/catcheck/Makefile config.status: creating auxil/rama/Makefile config.status: creating auxil/sec-str/Makefile config.status: creating auxil/strand-analysis/Makefile config.status: creating auxil/vectors/Makefile config.status: creating src/Makefile config.status: creating src/coot config.status: creating ui/Makefile config.status: executing depfiles commands config.status: executing libtool commands dh_auto_configure --buildsystem cmake cd obj-i686-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb 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/i386-linux-gnu .. -- The C compiler identification is GNU 13.2.0 -- The CXX compiler identification is GNU 13.2.0 -- 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 -- 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 -- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1") -- Looking for mmdb2/mmdb_defs.h - /usr/include -- Found CCP4: /usr/lib/i386-linux-gnu/libmmdb2.so -- Looking for ssm/ssm_vxedge.h - /usr/include -- Found CCP4: /usr/lib/i386-linux-gnu/libssm.so -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for clipper/clipper.h - /usr/include -- Found CCP4: /usr/lib/i386-linux-gnu/libclipper-core.so -- FFTW2 libraries - /usr/lib/libsfftw.so -- - /usr/lib/libsrfftw.so -- FFTW2 header directory - /usr/include -- Performing Test _LINKING_WITH_CLIPPER_CORE -- Performing Test _LINKING_WITH_CLIPPER_CORE - Success -- Looking for clipper/clipper-mmdb.h - /usr/include -- Found CCP4: /usr/lib/i386-linux-gnu/libclipper-mmdb.so -- Looking for clipper/clipper-ccp4.h - /usr/include -- Found CCP4: /usr/lib/i386-linux-gnu/libclipper-ccp4.so -- Looking for clipper/clipper-contrib.h - /usr/include -- Found CCP4: /usr/lib/i386-linux-gnu/libclipper-contrib.so -- Looking for clipper/clipper-minimol.h - /usr/include -- Found CCP4: /usr/lib/i386-linux-gnu/libclipper-minimol.so -- Looking for clipper/clipper-cif.h - /usr/include -- Found CCP4: /usr/lib/i386-linux-gnu/libclipper-cif.so -- CCP4 include directory: /usr/include -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib/i386-linux-gnu/libblas.so -- Found GSL: /usr/include (found version "2.7.1") -- Found ZLIB: /usr/lib/i386-linux-gnu/libz.so (found version "1.3.1") -- Found PNG: /usr/lib/i386-linux-gnu/libpng.so (found version "1.6.43") -- Found gemmi version 0.6.5 -- Found Python: /usr/bin/python3 (found version "3.11.9") found components: Interpreter -- Found Boost: /usr/lib/i386-linux-gnu/cmake/Boost-1.83.0/BoostConfig.cmake (found version "1.83.0") found components: iostreams system python regex thread serialization -- Found Python: /usr/bin/python3 (found suitable version "3.11.9", minimum required is "3.10") found components: Interpreter Development.Module Development.SABIModule -- Note: MAKE_ENHANCED_LIGAND_TOOLS was not enabled -- Configuring done (6.3s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/coot-1.1.08+dfsg/obj-i686-linux-gnu make[1]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg' dh_auto_build make -j6 make[1]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg' Making all in auxil make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil' Making all in catcheck make[3]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/catcheck' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/catcheck' Making all in rama make[3]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/rama' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/rama' Making all in sec-str make[3]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/sec-str' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/sec-str' Making all in strand-analysis make[3]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/strand-analysis' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/strand-analysis' Making all in vectors make[3]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/vectors' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil/vectors' make[3]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil' make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/auxil' Making all in scheme make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/scheme' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/scheme' Making all in python make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/python' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/python' Making all in pdb-templates make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/pdb-templates' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/pdb-templates' Making all in macros make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/macros' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/macros' Making all in compat make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/compat' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o getopt.lo getopt.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o getopt1.lo getopt1.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c getopt.cc -fPIC -DPIC -o .libs/getopt.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c getopt1.cc -fPIC -DPIC -o .libs/getopt1.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -Wl,-z,relro -o libcoot-compat.la -rpath /usr/lib/i386-linux-gnu getopt.lo getopt1.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crti.o /usr/lib/gcc/i686-linux-gnu/13/crtbeginS.o .libs/getopt.o .libs/getopt1.o -L/usr/lib/gcc/i686-linux-gnu/13 -L/usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/13/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/13/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/13/crtendS.o /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-compat.so.0 -o .libs/libcoot-compat.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-compat.so.0" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-compat.so" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so") libtool: link: ( cd ".libs" && rm -f "libcoot-compat.la" && ln -s "../libcoot-compat.la" "libcoot-compat.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/compat' Making all in utils make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/utils' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 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-DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o coot-fasta.lo coot-fasta.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 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-DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o setup-syminfo.lo setup-syminfo.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o gdk-keysyms.lo gdk-keysyms.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o hsv-rgb.lo hsv-rgb.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c hsv-rgb.cc -fPIC -DPIC -o .libs/hsv-rgb.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 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"-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c atomic-numbers.cc -fPIC -DPIC -o .libs/atomic-numbers.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c gdk-keysyms.cc -fPIC -DPIC -o .libs/gdk-keysyms.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o dodec.lo dodec.cc coot-utils.cc: In function 'bool coot::file_exists_and_non_tiny(const std::string&, unsigned int)': coot-utils.cc:1254:26: warning: comparison of integer expressions of different signedness: '__off_t' {aka 'long int'} and 'unsigned int' [-Wsign-compare] 1254 | if (buf.st_size > tiny_size_max) { | ~~~~~~~~~~~~^~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 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-DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o insertion-sort.lo insertion-sort.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o colour-holder.lo colour-holder.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c insertion-sort.cc -fPIC -DPIC -o .libs/insertion-sort.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c colour-holder.cc -fPIC -DPIC -o .libs/colour-holder.o /bin/bash ../libtool --tag=CXX --mode=link g++ -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -Wl,-z,relro -o libcoot-utils.la -rpath /usr/lib/i386-linux-gnu coot-utils.lo coot-fasta.lo atomic-numbers.lo setup-syminfo.lo gdk-keysyms.lo hsv-rgb.lo dodec.lo win-compat.lo threads.lo align-utils.lo pir-alignment.lo split-indices.lo radix.lo logging.lo insertion-sort.lo colour-holder.lo -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -ldw -lelf libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crti.o /usr/lib/gcc/i686-linux-gnu/13/crtbeginS.o .libs/coot-utils.o .libs/coot-fasta.o .libs/atomic-numbers.o .libs/setup-syminfo.o .libs/gdk-keysyms.o .libs/hsv-rgb.o .libs/dodec.o .libs/win-compat.o .libs/threads.o .libs/align-utils.o .libs/pir-alignment.o .libs/split-indices.o .libs/radix.o .libs/logging.o .libs/insertion-sort.o .libs/colour-holder.o -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -ldw -lelf -L/usr/lib/gcc/i686-linux-gnu/13 -L/usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/13/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/13/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/13/crtendS.o /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-utils.so.0 -o .libs/libcoot-utils.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-utils.so.0" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-utils.so" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so") libtool: link: ( cd ".libs" && rm -f "libcoot-utils.la" && ln -s "../libcoot-utils.la" "libcoot-utils.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/utils' Making all in protein_db make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/protein_db' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o protein_db.lo protein_db.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o protein_db_utils.lo protein_db_utils.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o rna_db.lo rna_db.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 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-DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c protein_db.cpp -fPIC -DPIC -o .libs/protein_db.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -Wl,-z,relro -o libcoot-protein-db.la -rpath /usr/lib/i386-linux-gnu protein_db.lo protein_db_utils.lo rna_db.lo -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crti.o /usr/lib/gcc/i686-linux-gnu/13/crtbeginS.o .libs/protein_db.o .libs/protein_db_utils.o .libs/rna_db.o -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/i686-linux-gnu/13 -L/usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/13/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/13/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/13/crtendS.o /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-protein-db.so.0 -o .libs/libcoot-protein-db.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so.0" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so") libtool: link: ( cd ".libs" && rm -f "libcoot-protein-db.la" && ln -s "../libcoot-protein-db.la" "libcoot-protein-db.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/protein_db' Making all in mini-mol make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/mini-mol' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o mini-mol.lo mini-mol.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o mini-mol-utils.lo mini-mol-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o atom-quads.lo atom-quads.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c mini-mol.cc -fPIC -DPIC -o .libs/mini-mol.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c atom-quads.cc -fPIC -DPIC -o .libs/atom-quads.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c mini-mol-utils.cc -fPIC -DPIC -o .libs/mini-mol-utils.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -Wl,-z,relro -o libcoot-mini-mol.la -rpath /usr/lib/i386-linux-gnu mini-mol.lo mini-mol-utils.lo atom-quads.lo ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crti.o /usr/lib/gcc/i686-linux-gnu/13/crtbeginS.o .libs/mini-mol.o .libs/mini-mol-utils.o .libs/atom-quads.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.08+dfsg/utils/.libs ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/i686-linux-gnu/13 -L/usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/13/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/13/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/13/crtendS.o /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-mini-mol.so.0 -o .libs/libcoot-mini-mol.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so.0" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so") libtool: link: ( cd ".libs" && rm -f "libcoot-mini-mol.la" && ln -s "../libcoot-mini-mol.la" "libcoot-mini-mol.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/mini-mol' Making all in geometry make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/geometry' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o cif-parse.lo cif-parse.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o protein-geometry.lo protein-geometry.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o protein-geometry-mmdb.lo protein-geometry-mmdb.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o read-sbase.lo read-sbase.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o energy-lib.lo energy-lib.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o mol-utils.lo mol-utils.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c mol-utils.cc -fPIC -DPIC -o .libs/mol-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c protein-geometry.cc -fPIC -DPIC -o .libs/protein-geometry.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" 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-DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c hydrophobic.cc -fPIC -DPIC -o .libs/hydrophobic.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c mol-utils-2.cc -fPIC -DPIC -o .libs/mol-utils-2.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o cif-parse-link.lo cif-parse-link.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o cif-parse-mon-lib.lo cif-parse-mon-lib.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o read-metals-json.lo read-metals-json.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c cif-parse-link.cc -fPIC -DPIC -o .libs/cif-parse-link.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c read-metals-json.cc -fPIC -DPIC -o .libs/read-metals-json.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c cif-parse-mon-lib.cc -fPIC -DPIC -o .libs/cif-parse-mon-lib.o /bin/bash ../libtool --tag=CXX --mode=link g++ -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -Wl,-z,relro -o libcoot-geometry.la -rpath /usr/lib/i386-linux-gnu cif-parse.lo protein-geometry.lo protein-geometry-mmdb.lo read-sbase.lo energy-lib.lo mol-utils.lo dictionary-residue.lo link.lo glyco-tools.lo dict-utils.lo chem_mods.lo srs-interface.lo protein-donor-acceptors.lo lbg-graph.lo dreiding.lo main-chain.lo residue-and-atom-specs.lo intercept-3GP.lo mol-utils-2.lo hydrophobic.lo cif-parse-link.lo cif-parse-mon-lib.lo read-metals-json.lo ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crti.o /usr/lib/gcc/i686-linux-gnu/13/crtbeginS.o .libs/cif-parse.o .libs/protein-geometry.o .libs/protein-geometry-mmdb.o .libs/read-sbase.o .libs/energy-lib.o .libs/mol-utils.o .libs/dictionary-residue.o .libs/link.o .libs/glyco-tools.o .libs/dict-utils.o .libs/chem_mods.o .libs/srs-interface.o .libs/protein-donor-acceptors.o .libs/lbg-graph.o .libs/dreiding.o .libs/main-chain.o .libs/residue-and-atom-specs.o .libs/intercept-3GP.o .libs/mol-utils-2.o .libs/hydrophobic.o .libs/cif-parse-link.o .libs/cif-parse-mon-lib.o .libs/read-metals-json.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.08+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.08+dfsg/utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.08+dfsg/compat/.libs ../mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/i686-linux-gnu/13 -L/usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/13/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/13/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/13/crtendS.o /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-geometry.so.0 -o .libs/libcoot-geometry.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-geometry.so.0" && ln -s "libcoot-geometry.so.0.0.0" "libcoot-geometry.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-geometry.so" && ln -s "libcoot-geometry.so.0.0.0" "libcoot-geometry.so") libtool: link: ( cd ".libs" && rm -f "libcoot-geometry.la" && ln -s "../libcoot-geometry.la" "libcoot-geometry.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/geometry' Making all in lidia-core make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/lidia-core' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_SQLITE3 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o lbg-shared.lo lbg-shared.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ 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-DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_SQLITE3 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c svg-molecule.cc -fPIC -DPIC -o .libs/svg-molecule.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -Wl,-z,relro -o libcoot-lidia-core.la -rpath /usr/lib/i386-linux-gnu lbg-shared.lo lbg-molfile.lo lig-build.lo rdkit-interface.lo cod-types.lo atom-types.lo bond-record-container-t.lo cod-atom-type-t.lo cod-atom-types.lo bond-table-record-t.lo chemical-feature-clusters.lo get-residue.lo svg-molecule.lo ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges 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-Wl,/build/reproducible-path/coot-1.1.08+dfsg/mini-mol/.libs ../geometry/.libs/libcoot-geometry.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/i386-linux-gnu -lsqlite3 -L/usr/lib/gcc/i686-linux-gnu/13 -L/usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/13/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/13/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/13/crtendS.o /usr/lib/gcc/i686-linux-gnu/13/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-lidia-core.so.0 -o .libs/libcoot-lidia-core.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so.0" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so") libtool: link: ( cd ".libs" && rm -f "libcoot-lidia-core.la" && ln -s "../libcoot-lidia-core.la" "libcoot-lidia-core.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/lidia-core' Making all in coot-utils make[2]: Entering directory '/build/reproducible-path/coot-1.1.08+dfsg/coot-utils' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 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-I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o peak-search.lo peak-search.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 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-DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o atom-overlaps.lo atom-overlaps.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c coot-least-squares.cc -fPIC -DPIC -o .libs/coot-least-squares.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c atom-overlaps.cc -fPIC -DPIC -o .libs/atom-overlaps.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o reduce.lo reduce.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o atom-selection-container.lo atom-selection-container.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c reduce.cc -fPIC -DPIC -o .libs/reduce.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c atom-selection-container.cc -fPIC -DPIC -o .libs/atom-selection-container.o In file included from /usr/include/gemmi/model.hpp:18, from /usr/include/gemmi/chemcomp_xyz.hpp:12, from /usr/include/gemmi/mmread.hpp:8, from atom-selection-container.cc:38: /usr/include/gemmi/elem.hpp: In function 'double gemmi::molecular_weight(El)': /usr/include/gemmi/elem.hpp:100:50: error: static assertion failed: Hmm 100 | static_assert(weights[static_cast(El::D)] == 2.0141, "Hmm"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /usr/include/gemmi/elem.hpp:100:50: note: the comparison reduces to '(2.01410000000000000142e+0l == 2.0140999999999999999e+0l)' /usr/include/gemmi/elem.hpp: In function 'float gemmi::covalent_radius(El)': /usr/include/gemmi/elem.hpp:141:48: error: static assertion failed: Hmm 141 | static_assert(radii[static_cast(El::D)] == 0.31f, "Hmm"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /usr/include/gemmi/elem.hpp:141:48: note: the comparison reduces to '(3.10000002384185791016e-1l == 3.10000000000000000002e-1l)' /usr/include/gemmi/elem.hpp: In function 'float gemmi::vdw_radius(El)': /usr/include/gemmi/elem.hpp:186:48: error: static assertion failed: Hmm 186 | static_assert(radii[static_cast(El::D)] == 1.2f, "Hmm"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /usr/include/gemmi/elem.hpp:186:48: note: the comparison reduces to '(1.20000004768371582031e+0l == 1.20000000000000000004e+0l)' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o contact-info.lo contact-info.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c contact-info.cc -fPIC -DPIC -o .libs/contact-info.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" -DPACKAGE_STRING=\"coot\ 1.1.08\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c -o coot-shelx-ins.lo coot-shelx-ins.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.08\" "-DPACKAGE_STRING=\"coot 1.1.08\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.08\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.11\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/i386-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.08+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wno-unused -std=c++17 -c coot-shelx-ins.cc -fPIC -DPIC -o .libs/coot-shelx-ins.o make[2]: *** [Makefile:1387: atom-selection-container.lo] Error 1 make[2]: *** Waiting for unfinished jobs.... make[2]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg/coot-utils' make[1]: *** [Makefile:708: all-recursive] Error 1 make[1]: Leaving directory '/build/reproducible-path/coot-1.1.08+dfsg' dh_auto_build: error: make -j6 returned exit code 2 make: *** [debian/rules:78: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1169 and its subdirectories Wed Jun 5 07:01:41 UTC 2024 W: No second build log, what happened?