Start: 2024-03-01 16:19:17 GMT Package: python3-cctbx Source: cctbx Version: 2023.12+ds2+~3.17.0+ds1-4 Installed-Size: 501959 Maintainer: Debian Science Maintainers Architecture: amd64 Depends: ca-certificates, libcctbx-dev (= 2023.12+ds2+~3.17.0+ds1-4), libcctbx0 (= 2023.12+ds2+~3.17.0+ds1-4), python3-pycbf (>= 0.9.7+dfsg1-2~), python3 (<< 3.13), python3 (>= 3.11~), python3-h5py (>= 3), python3-matplotlib, python3-mrcfile, python3-numpy (>= 1:1.22.0), python3-numpy-abi9, python3-nxmx, python3-orderedset, python3-pil, python3-pint, python3-procrunner, python3-pymol, python3-requests, python3-scipy, python3-six, python3-tqdm, python3-wxgtk4.0, python3:any, libantlr3c-3.4-0 | libantlr3c-antlrdbg-3.4-0, libboost-numpy1.83.0 (>= 1.83.0), libboost-numpy1.83.0-py311, libboost-numpy1.83.0-py312, libboost-python1.83.0 (>= 1.83.0), libboost-python1.83.0-py311, libboost-python1.83.0-py312, libboost-thread1.83.0 (>= 1.83.0), libc6 (>= 2.34), libcbf1t64 (>= 0.9.7+dfsg1-2~), libccp4c0 (>= 8.0.0), libgcc-s1 (>= 4.0), libgl1, libglu1-mesa | libglu1, libhdf5-103-1t64, libmmdb2-0 (>= 2.0.22), libssm2 (>= 1.4.0), libstdc++6 (>= 13.1) Description: Python Toolbox for crystallography Homepage: https://github.com/cctbx/cctbx_project Description-md5: 82495d7385342d38e22c572566893a2d Tag: field::physics, implemented-in::python, role::program, science::calculation, science::plotting, science::visualisation, use::analysing, use::calculating, use::viewing Section: python Priority: optional Filename: pool/main/c/cctbx/python3-cctbx_2023.12+ds2+~3.17.0+ds1-4_amd64.deb Size: 50134860 MD5sum: 21abbf20e7beff55eaa010e9ec4923ae SHA256: c7f518562c87755b767b6de113da1cefbeb159cc5a0af722debc75e8e4674850 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt 'python3-cctbx=2023.12+ds2+~3.17.0+ds1-4' 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.3.1~202401311836~1.3-2-g28295102 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt 'python3-cctbx=2023.12+ds2+~3.17.0+ds1-4' 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-28-amd64 #1 SMP Debian 5.10.209-2 (2024-01-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpddj305og 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpddj305og 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpddj305og', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpddj305og', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpddj305og/proc'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpddj305og/proc'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/pts'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/pts'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/ptmx'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/ptmx'] 0m0.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/console'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/console'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/shm'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/shm'] 0m0.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m0.4s DEBUG: Created policy-rc.d and chmodded it. 0m0.4s DEBUG: Created resolv.conf. 0m0.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts-log-alternatives to /srv/piuparts.debian.org/tmp/tmpddj305og/tmp/scripts/ 0m0.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpddj305og/tmp/scripts/ 0m0.4s INFO: Running scripts post_chroot_unpack 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', 'update'] 0m5.1s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [198 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9921 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7219 kB] Fetched 17.3 MB in 4s (4726 kB/s) Reading package lists... 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', 'update'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', '-yf', 'dist-upgrade'] 0m10.6s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be REMOVED: libcom-err2 libext2fs2 libgnutls30 libss2 libuuid1 The following NEW packages will be installed: libcom-err2t64 libext2fs2t64 libgnutls30t64 libss2t64 libuuid1t64 The following packages will be upgraded: apt bsdutils e2fsprogs libapt-pkg6.0t64 libblkid1 libc-bin libc6 libmount1 libpam-modules libpam-modules-bin libpam-runtime libsmartcols1 logsave mount sysvinit-utils util-linux 16 upgraded, 5 newly installed, 5 to remove and 0 not upgraded. Need to get 10.4 MB of archives. After this operation, 7168 B disk space will be freed. Get:1 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.39.3-6.1 [97.0 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libss2t64 amd64 1.47.0-2.3 [24.9 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libcom-err2t64 amd64 1.47.0-2.3 [20.2 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.37-15.1 [2752 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libext2fs2t64 amd64 1.47.0-2.3 [206 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libuuid1t64 amd64 2.39.3-6.1 [30.0 kB] Get:7 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.39.3-6.1 [1231 kB] Get:8 http://deb.debian.org/debian sid/main amd64 logsave amd64 1.47.0-2.3 [19.9 kB] Get:9 http://deb.debian.org/debian sid/main amd64 e2fsprogs amd64 1.47.0-2.3 [571 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0t64 amd64 2.7.13+b1 [984 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libgnutls30t64 amd64 3.8.3-1.1 [1425 kB] Get:12 http://deb.debian.org/debian sid/main amd64 apt amd64 2.7.13+b1 [1368 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.37-15.1 [602 kB] Get:14 http://deb.debian.org/debian sid/main amd64 sysvinit-utils amd64 3.08-7 [32.2 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libpam-modules-bin amd64 1.5.3-6 [54.2 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libpam-modules amd64 1.5.3-6 [260 kB] Get:17 http://deb.debian.org/debian sid/main amd64 mount amd64 2.39.3-6.1 [143 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libpam-runtime all 1.5.3-6 [140 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.39.3-6.1 [159 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.39.3-6.1 [191 kB] Get:21 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.39.3-6.1 [116 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 10.4 MB in 0s (62.5 MB/s) (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 ... 5234 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.39.3-6.1_amd64.deb ... Unpacking bsdutils (1:2.39.3-6.1) over (1:2.39.3-6) ... Setting up bsdutils (1:2.39.3-6.1) ... dpkg: libss2:amd64: dependency problems, but removing anyway as you requested: e2fsprogs depends on libss2 (>= 1.38). (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 ... 5234 files and directories currently installed.) Removing libss2:amd64 (1.47.0-2+b1) ... Selecting previously unselected package libss2t64:amd64. (Reading database ... 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(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 ... 5234 files and directories currently installed.) Removing libcom-err2:amd64 (1.47.0-2+b1) ... Selecting previously unselected package libcom-err2t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5228 files and directories currently installed.) Preparing to unpack .../libcom-err2t64_1.47.0-2.3_amd64.deb ... Unpacking libcom-err2t64:amd64 (1.47.0-2.3) ... Preparing to unpack .../libc6_2.37-15.1_amd64.deb ... Unpacking libc6:amd64 (2.37-15.1) over (2.37-15) ... Setting up libc6:amd64 (2.37-15.1) ... dpkg: libext2fs2:amd64: dependency problems, but removing anyway as you requested: e2fsprogs depends on libext2fs2 (= 1.47.0-2+b1). (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 ... 5234 files and directories currently installed.) Removing libext2fs2:amd64 (1.47.0-2+b1) ... Selecting previously unselected package libext2fs2t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5226 files and directories currently installed.) Preparing to unpack .../libext2fs2t64_1.47.0-2.3_amd64.deb ... Unpacking libext2fs2t64:amd64 (1.47.0-2.3) ... dpkg: libuuid1:amd64: dependency problems, but removing anyway as you requested: util-linux depends on libuuid1 (>= 2.16). e2fsprogs depends on libuuid1 (>= 2.16). (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 ... 5234 files and directories currently installed.) Removing libuuid1:amd64 (2.39.3-6) ... Selecting previously unselected package libuuid1t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5228 files and directories currently installed.) Preparing to unpack .../libuuid1t64_2.39.3-6.1_amd64.deb ... Unpacking libuuid1t64:amd64 (2.39.3-6.1) ... Setting up libuuid1t64:amd64 (2.39.3-6.1) ... (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 ... 5235 files and directories currently installed.) Preparing to unpack .../util-linux_2.39.3-6.1_amd64.deb ... Unpacking util-linux (2.39.3-6.1) over (2.39.3-6) ... Setting up util-linux (2.39.3-6.1) ... (Reading database ... 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Unpacking e2fsprogs (1.47.0-2.3) over (1.47.0-2+b1) ... dpkg: warning: unable to delete old directory '/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/udev': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd': Directory not empty Preparing to unpack .../libapt-pkg6.0t64_2.7.13+b1_amd64.deb ... Unpacking libapt-pkg6.0t64:amd64 (2.7.13+b1) over (2.7.13) ... Setting up libapt-pkg6.0t64:amd64 (2.7.13+b1) ... dpkg: libgnutls30:amd64: dependency problems, but removing anyway as you requested: apt depends on libgnutls30 (>= 3.8.1). (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 ... 5232 files and directories currently installed.) Removing libgnutls30:amd64 (3.8.3-1) ... Selecting previously unselected package libgnutls30t64:amd64. (Reading database ... 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(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 ... 5234 files and directories currently installed.) Preparing to unpack .../sysvinit-utils_3.08-7_amd64.deb ... Unpacking sysvinit-utils (3.08-7) over (3.08-6) ... dpkg: warning: unable to delete old directory '/lib/lsb/init-functions.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/lsb': Directory not empty dpkg: warning: unable to delete old directory '/lib/init': Directory not empty Setting up sysvinit-utils (3.08-7) ... (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 ... 5234 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.3-6_amd64.deb ... Unpacking libpam-modules-bin (1.5.3-6) over (1.5.3-4) ... Setting up libpam-modules-bin (1.5.3-6) ... (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 ... 5234 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.3-6_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.3-6) over (1.5.3-4) ... Setting up libpam-modules:amd64 (1.5.3-6) ... (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 ... 5232 files and directories currently installed.) Preparing to unpack .../mount_2.39.3-6.1_amd64.deb ... Unpacking mount (2.39.3-6.1) over (2.39.3-6) ... Preparing to unpack .../libpam-runtime_1.5.3-6_all.deb ... Unpacking libpam-runtime (1.5.3-6) over (1.5.3-4) ... Setting up libpam-runtime (1.5.3-6) ... (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 ... 5232 files and directories currently installed.) Preparing to unpack .../libblkid1_2.39.3-6.1_amd64.deb ... Unpacking libblkid1:amd64 (2.39.3-6.1) over (2.39.3-6) ... Setting up libblkid1:amd64 (2.39.3-6.1) ... (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 ... 5232 files and directories currently installed.) Preparing to unpack .../libmount1_2.39.3-6.1_amd64.deb ... Unpacking libmount1:amd64 (2.39.3-6.1) over (2.39.3-6) ... Setting up libmount1:amd64 (2.39.3-6.1) ... (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 ... 5232 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.39.3-6.1_amd64.deb ... Unpacking libsmartcols1:amd64 (2.39.3-6.1) over (2.39.3-6) ... Setting up libsmartcols1:amd64 (2.39.3-6.1) ... Setting up logsave (1.47.0-2.3) ... Setting up mount (2.39.3-6.1) ... Setting up e2fsprogs (1.47.0-2.3) ... Processing triggers for libc-bin (2.37-15.1) ... 0m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', '-yf', 'dist-upgrade'] 0m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m11.0s DUMP: 330acfde70600f3c7a600e6e7904bc9d - 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m11.0s INFO: Running scripts post_setup 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_dummy_users'] 0m12.1s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m12.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_dummy_users'] 0m12.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_forbid_home'] 0m12.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m12.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_forbid_home'] 0m12.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_force-unsafe-io'] 0m12.1s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m12.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_force-unsafe-io'] 0m12.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_minimize'] 0m12.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_minimize'] 0m12.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_squeeze-backports'] 0m12.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_squeeze-backports'] 0m12.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_zz_backports'] 0m12.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_setup_zz_backports'] 0m12.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', 'clean'] 0m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', 'clean'] 0m12.2s DEBUG: Recording chroot state 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m12.7s DUMP: install ok installed apt apt 2.7.13+b1 install ok installed base-files base-files 13 install ok installed base-passwd base-passwd 3.6.3 install ok installed bash bash 5.2.21-2 install ok installed bsdutils bsdutils 1:2.39.3-6.1 install ok installed coreutils coreutils 9.4-3+b1 install ok installed dash dash 0.5.12-6 install ok installed debconf debconf 1.5.86 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.16 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.5 install ok installed e2fsprogs e2fsprogs 1.47.0-2.3 install ok installed findutils findutils 4.9.0-5 install ok installed gcc-14-base:amd64 gcc-14-base 14-20240221-2.1 install ok installed gpgv gpgv 2.2.40-1.1+b1 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.66 install ok installed libacl1:amd64 libacl1 2.3.2-1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.7.13+b1 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:3.1.2-2.1 install ok installed libaudit1:amd64 libaudit1 1:3.1.2-2.1 install ok installed libblkid1:amd64 libblkid1 2.39.3-6.1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b2 install ok installed libc-bin libc-bin 2.37-15.1 install ok installed libc6:amd64 libc6 2.37-15.1 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.4-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcom-err2t64:amd64 libcom-err2t64 1.47.0-2.3 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-4 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.271+b1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.0-2.3 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14-20240221-2.1 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.3-2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.3-1.1 install ok installed libgpg-error0:amd64 libgpg-error0 1.47-3 install ok installed libhogweed6:amd64 libhogweed6 3.9.1-2+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1+b2 install ok installed liblzma5:amd64 liblzma5 5.6.0-0.2 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmount1:amd64 libmount1 2.39.3-6.1 install ok installed libnettle8:amd64 libnettle8 3.9.1-2+b1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.3-4 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-6 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-6 install ok installed libpam-runtime libpam-runtime 1.5.3-6 install ok installed libpam0t64:amd64 libpam0t64 1.5.3-4 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1 install ok installed libselinux1:amd64 libselinux1 3.5-2 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1+b2 install ok installed libsepol2:amd64 libsepol2 3.5-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.39.3-6.1 install ok installed libss2t64:amd64 libss2t64 1.47.0-2.3 install ok installed libssl3:amd64 libssl3 3.1.5-1 install ok installed libstdc++6:amd64 libstdc++6 14-20240221-2.1 install ok installed libsystemd0:amd64 libsystemd0 255.4-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtinfo6:amd64 libtinfo6 6.4+20240113-1 install ok installed libudev1:amd64 libudev1 255.4-1 install ok installed libunistring5:amd64 libunistring5 1.1-2 install ok installed libuuid1t64:amd64 libuuid1t64 2.39.3-6.1 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libzstd1:amd64 libzstd1 1.5.5+dfsg2-2 install ok installed login login 1:4.13+dfsg1-4 install ok installed logsave logsave 1.47.0-2.3 install ok installed mawk mawk 1.3.4.20240123-1 install ok installed mount mount 2.39.3-6.1 install ok installed ncurses-base ncurses-base 6.4+20240113-1 install ok installed ncurses-bin ncurses-bin 6.4+20240113-1 install ok installed passwd passwd 1:4.13+dfsg1-4 install ok installed perl-base perl-base 5.38.2-3 install ok installed sed sed 4.9-2 install ok installed sysvinit-utils sysvinit-utils 3.08-7 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024a-1 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.39.3-6.1 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg-3+b1 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg-divert', '--list'] 0m12.7s DUMP: diversion of /lib/x86_64-linux-gnu/libpam.so.0 to /lib/x86_64-linux-gnu/libpam.so.0.usr-is-merged by libpam0t64 diversion of /lib/x86_64-linux-gnu/libpamc.so.0 to /lib/x86_64-linux-gnu/libpamc.so.0.usr-is-merged by libpam0t64 diversion of /lib/x86_64-linux-gnu/libpam.so.0.85.1 to /lib/x86_64-linux-gnu/libpam.so.0.85.1.usr-is-merged by libpam0t64 local diversion of /bin/sync to /bin/sync.distrib local diversion of /home to /home.distrib diversion of /lib/x86_64-linux-gnu/libpam_misc.so.0 to /lib/x86_64-linux-gnu/libpam_misc.so.0.usr-is-merged by libpam0t64 diversion of /lib/x86_64-linux-gnu/libpam_misc.so.0.82.1 to /lib/x86_64-linux-gnu/libpam_misc.so.0.82.1.usr-is-merged by libpam0t64 diversion of /lib/x86_64-linux-gnu/libpamc.so.0.82.1 to /lib/x86_64-linux-gnu/libpamc.so.0.82.1.usr-is-merged by libpam0t64 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg-divert', '--list'] 0m12.7s INFO: Running scripts is_testable 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/is_testable_uninstallable'] 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/is_testable_uninstallable'] 0m12.7s INFO: apt-cache does not know about any of the requested packages 0m12.7s INFO: Running scripts pre_test 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_test_exceptions'] 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_test_exceptions'] 0m12.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_test_root_password'] 0m12.7s DUMP: New password: Retype new password: passwd: password updated successfully 0m12.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_test_root_password'] 0m12.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 0m13.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 0m13.5s DEBUG: No broken symlinks as far as we can find. 0m13.5s INFO: Running scripts pre_install 0m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_database-server'] 0m13.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_database-server'] 0m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_exceptions'] 0m13.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_exceptions'] 0m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_extras'] 0m13.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_extras'] 0m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_foreign_architecture'] 0m13.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_foreign_architecture'] 0m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m13.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_log_alternatives'] 0m13.5s DUMP: Adding 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' dpkg-divert: warning: diverting file '/usr/bin/update-alternatives' from an Essential package with rename is dangerous, use --no-rename 0m13.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_install_log_alternatives'] 0m13.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 0m13.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 0m14.3s DEBUG: No broken symlinks as far as we can find. 0m14.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-cache', 'policy'] 0m15.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m15.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-cache', 'policy'] 0m15.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-cache', 'policy', 'python3-cctbx'] 0m15.5s DUMP: python3-cctbx: Installed: (none) Candidate: 2023.12+ds2+~3.17.0+ds1-4 Version table: 2023.12+ds2+~3.17.0+ds1-4 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m15.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-cache', 'policy', 'python3-cctbx'] 0m15.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', '-y', 'install', 'python3-cctbx=2023.12+ds2+~3.17.0+ds1-4'] 2m32.4s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: adduser adwaita-icon-theme at-spi2-common blt ca-certificates dbus dbus-bin dbus-daemon dbus-session-bus-common dbus-system-bus-common dbus-user-session dconf-gsettings-backend dconf-service dmsetup fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome fonts-lato fonts-lyx gcc-13-base gtk-update-icon-cache hicolor-icon-theme libaec0 libann-cctbx-dev libann-cctbx0 libantlr3c-3.4-0 libapparmor1 libargon2-1 libasan8 libatk-bridge2.0-0 libatk1.0-0 libatomic1 libatspi2.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libboost-numpy1.83.0 libboost-python-dev libboost-python1.83-dev libboost-python1.83.0 libboost-thread1.83.0 libboost1.83-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo-gobject2 libcairo2 libcbf1t64 libccp4-data libccp4-dev libccp4c0 libccp4f0 libcctbx-dev libcctbx0 libcloudproviders0 libcolord2 libcrypt-dev libcryptsetup12 libcups2 libcurl3-gnutls libcurl4 libdatrie1 libdbus-1-3 libdconf1 libdeflate0 libdevmapper1.02.1 libdouble-conversion3 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libegl-mesa0 libegl1 libelf1t64 libepoxy0 libevdev2 libexpat1 libexpat1-dev libfdisk1 libfontconfig1 libfreetype6 libfribidi0 libgbm1 libgcc-13-dev libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgl1 libgl1-mesa-dri libglapi-mesa libglew2.2 libglib2.0-0t64 libglu1-mesa libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgtk-3-0 libgtk-3-common libgudev-1.0-0 libharfbuzz0b libhdf5-103-1t64 libhdf5-hl-100 libhwasan0 libice6 libicu72 libimagequant0 libinput-bin libinput10 libitm1 libjbig0 libjpeg62-turbo libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjson-c5 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblerc4 libllvm17 liblsan0 liblzf1 libmd4c0 libmmdb2-0 libmtdev1 libncursesw6 libnetcdf19 libnghttp2-14 libnotify4 libnsl2 libopengl0 libopenjp2-7 libpam-systemd libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcre2-16-0 libpcre2-32-0 libpixman-1-0 libpng16-16 libproc2-0 libpsl5 libpython3-dev libpython3-stdlib libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libpython3.11t64 libpython3.12-minimal libpython3.12-stdlib libqhull-r8.0 libqt5core5a libqt5dbus5 libqt5designer5 libqt5gui5 libqt5help5 libqt5network5 libqt5opengl5 libqt5printsupport5 libqt5sql5 libqt5test5 libqt5widgets5 libqt5xml5 libquadmath0 libraqm0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsharpyuv0 libsm6 libsqlite3-0 libssh2-1 libssl3t64 libssm2 libstdc++-13-dev libsystemd-shared libsz2 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3 libtk8.6 libtsan2 libubsan1 libvulkan1 libwacom-common libwacom9 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwayland-server0 libwebp7 libwebpdemux2 libwebpmux3 libwxbase3.2-1 libwxgtk-gl3.2-1 libwxgtk3.2-1 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-icccm4 libxcb-image0 libxcb-keysyms1 libxcb-present0 libxcb-randr0 libxcb-render-util0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-util1 libxcb-xfixes0 libxcb-xinerama0 libxcb-xinput0 libxcb-xkb1 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon-x11-0 libxkbcommon0 libxml2 libxrandr2 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxtst6 libxxf86vm1 libz3-4 linux-libc-dev media-types netbase openssl procps pymol-data python-matplotlib-data python3 python3-appdirs python3-attr python3-brotli python3-certifi python3-chardet python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-decorator python3-dev python3-distutils python3-fonttools python3-fs python3-h5py python3-h5py-serial python3-idna python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-mpmath python3-mrcfile python3-numpy python3-nxmx python3-opengl python3-orderedset python3-packaging python3-pil python3-pil.imagetk python3-pint python3-pkg-resources python3-procrunner python3-pycbf python3-pymol python3-pyparsing python3-pyqt5 python3-pyqt5.qtopengl python3-pyqt5.sip python3-requests python3-scipy python3-six python3-sympy python3-tk python3-tqdm python3-tz python3-ufolib2 python3-unicodedata2 python3-urllib3 python3-wxgtk4.0 python3.11 python3.11-dev python3.11-minimal python3.12 python3.12-minimal readline-common rpcsvc-proto shared-mime-info sphinx-rtd-theme-common systemd systemd-dev systemd-sysv tk8.6-blt2.5 unicode-data x11-common xkb-data zlib1g-dev Suggested packages: liblocale-gettext-perl perl cron quota blt-demo libboost1.83-doc gccxml libboost-atomic1.83-dev libboost-chrono1.83-dev libboost-container1.83-dev libboost-context1.83-dev libboost-contract1.83-dev libboost-coroutine1.83-dev libboost-date-time1.83-dev libboost-exception1.83-dev libboost-fiber1.83-dev libboost-filesystem1.83-dev libboost-graph-parallel1.83-dev libboost-graph1.83-dev libboost-iostreams1.83-dev libboost-json1.83-dev libboost-locale1.83-dev libboost-log1.83-dev libboost-math1.83-dev libboost-mpi-python1.83-dev libboost-mpi1.83-dev libboost-nowide1.83-dev libboost-numpy1.83-dev libboost-program-options1.83-dev libboost-random1.83-dev libboost-regex1.83-dev libboost-serialization1.83-dev libboost-stacktrace1.83-dev libboost-system1.83-dev libboost-test1.83-dev libboost-thread1.83-dev libboost-timer1.83-dev libboost-type-erasure1.83-dev libboost-url1.83-dev libboost-wave1.83-dev libboost1.83-tools-dev libmpfrc++-dev libntl-dev glibc-doc manpages-dev colord cups-common glew-utils low-memory-monitor krb5-doc krb5-user gvfs libjs-jquery-ui-docs liblcms2-utils notification-daemon pciutils qgnomeplatform-qt5 qt5-image-formats-plugins lm-sensors libstdc++-13-doc tcl8.6 tk8.6 libwacom-bin python3-doc python3-venv python-attr-doc python-charset-normalizer-doc python-cycler-doc python-h5py-doc python-lxml-doc cm-super-minimal dvipng ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-sip python3-tornado texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 gcc gfortran python3-pytest libgle3 python-pil-doc python3-setuptools python-pyparsing-doc python3-cryptography python3-openssl python3-socks python-requests-doc python-scipy-doc texlive-fonts-extra python-sympy-doc tix python3-tk-dbg wx3.2-doc python3.11-venv python3.11-doc binutils binfmt-support python3.12-venv python3.12-doc readline-doc systemd-container systemd-homed systemd-userdbd systemd-boot systemd-resolved libfido2-1 libip4tc2 libqrencode4 libtss2-esys-3.0.2-0 libtss2-mu-4.0.1-0 libtss2-rc0 libtss2-tcti-device0 polkitd Recommended packages: librsvg2-common at-spi2-core manpages manpages-dev libc-devtools libgdk-pixbuf2.0-bin libglib2.0-data xdg-user-dirs libgtk-3-bin libgtk-3-0t64 javascript-common krb5-locales libldap-common libgpm2 publicsuffix qttranslations5-l10n libqt5svg5 qt5-gtk-platformtheme qtwayland5 libqt5sql5-sqlite | libqt5sql5-mysql | libqt5sql5-odbc | libqt5sql5-psql | libqt5sql5-tds | libqt5sql5-ibase libsasl2-modules mesa-vulkan-drivers | vulkan-icd psmisc python3-bs4 python3-cssselect python3-html5lib libglut-dev python3-olefile g++ | c++-compiler isympy-common systemd-timesyncd | time-daemon libnss-systemd The following packages will be REMOVED: libssl3 The following NEW packages will be installed: adduser adwaita-icon-theme at-spi2-common blt ca-certificates dbus dbus-bin dbus-daemon dbus-session-bus-common dbus-system-bus-common dbus-user-session dconf-gsettings-backend dconf-service dmsetup fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome fonts-lato fonts-lyx gcc-13-base gtk-update-icon-cache hicolor-icon-theme libaec0 libann-cctbx-dev libann-cctbx0 libantlr3c-3.4-0 libapparmor1 libargon2-1 libasan8 libatk-bridge2.0-0 libatk1.0-0 libatomic1 libatspi2.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libboost-numpy1.83.0 libboost-python-dev libboost-python1.83-dev libboost-python1.83.0 libboost-thread1.83.0 libboost1.83-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo-gobject2 libcairo2 libcbf1t64 libccp4-data libccp4-dev libccp4c0 libccp4f0 libcctbx-dev libcctbx0 libcloudproviders0 libcolord2 libcrypt-dev libcryptsetup12 libcups2 libcurl3-gnutls libcurl4 libdatrie1 libdbus-1-3 libdconf1 libdeflate0 libdevmapper1.02.1 libdouble-conversion3 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libegl-mesa0 libegl1 libelf1t64 libepoxy0 libevdev2 libexpat1 libexpat1-dev libfdisk1 libfontconfig1 libfreetype6 libfribidi0 libgbm1 libgcc-13-dev libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgl1 libgl1-mesa-dri libglapi-mesa libglew2.2 libglib2.0-0t64 libglu1-mesa libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgtk-3-0 libgtk-3-common libgudev-1.0-0 libharfbuzz0b libhdf5-103-1t64 libhdf5-hl-100 libhwasan0 libice6 libicu72 libimagequant0 libinput-bin libinput10 libitm1 libjbig0 libjpeg62-turbo libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjson-c5 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblerc4 libllvm17 liblsan0 liblzf1 libmd4c0 libmmdb2-0 libmtdev1 libncursesw6 libnetcdf19 libnghttp2-14 libnotify4 libnsl2 libopengl0 libopenjp2-7 libpam-systemd libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcre2-16-0 libpcre2-32-0 libpixman-1-0 libpng16-16 libproc2-0 libpsl5 libpython3-dev libpython3-stdlib libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libpython3.11t64 libpython3.12-minimal libpython3.12-stdlib libqhull-r8.0 libqt5core5a libqt5dbus5 libqt5designer5 libqt5gui5 libqt5help5 libqt5network5 libqt5opengl5 libqt5printsupport5 libqt5sql5 libqt5test5 libqt5widgets5 libqt5xml5 libquadmath0 libraqm0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsharpyuv0 libsm6 libsqlite3-0 libssh2-1 libssl3t64 libssm2 libstdc++-13-dev libsystemd-shared libsz2 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3 libtk8.6 libtsan2 libubsan1 libvulkan1 libwacom-common libwacom9 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwayland-server0 libwebp7 libwebpdemux2 libwebpmux3 libwxbase3.2-1 libwxgtk-gl3.2-1 libwxgtk3.2-1 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-icccm4 libxcb-image0 libxcb-keysyms1 libxcb-present0 libxcb-randr0 libxcb-render-util0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-util1 libxcb-xfixes0 libxcb-xinerama0 libxcb-xinput0 libxcb-xkb1 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon-x11-0 libxkbcommon0 libxml2 libxrandr2 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxtst6 libxxf86vm1 libz3-4 linux-libc-dev media-types netbase openssl procps pymol-data python-matplotlib-data python3 python3-appdirs python3-attr python3-brotli python3-cctbx python3-certifi python3-chardet python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-decorator python3-dev python3-distutils python3-fonttools python3-fs python3-h5py python3-h5py-serial python3-idna python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-mpmath python3-mrcfile python3-numpy python3-nxmx python3-opengl python3-orderedset python3-packaging python3-pil python3-pil.imagetk python3-pint python3-pkg-resources python3-procrunner python3-pycbf python3-pymol python3-pyparsing python3-pyqt5 python3-pyqt5.qtopengl python3-pyqt5.sip python3-requests python3-scipy python3-six python3-sympy python3-tk python3-tqdm python3-tz python3-ufolib2 python3-unicodedata2 python3-urllib3 python3-wxgtk4.0 python3.11 python3.11-dev python3.11-minimal python3.12 python3.12-minimal readline-common rpcsvc-proto shared-mime-info sphinx-rtd-theme-common systemd systemd-dev systemd-sysv tk8.6-blt2.5 unicode-data x11-common xkb-data zlib1g-dev 0 upgraded, 341 newly installed, 1 to remove and 0 not upgraded. Need to get 310 MB of archives. After this operation, 1794 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libssl3t64 amd64 3.1.5-1.1 [2058 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libapparmor1 amd64 3.0.12-1+b2 [41.5 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libargon2-1 amd64 0~20190702+dfsg-4+b1 [21.1 kB] Get:4 http://deb.debian.org/debian sid/main amd64 dmsetup amd64 2:1.02.196-1 [82.4 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libdevmapper1.02.1 amd64 2:1.02.196-1 [133 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libjson-c5 amd64 0.17-1+b1 [44.2 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libcryptsetup12 amd64 2:2.7.0-1 [246 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libfdisk1 amd64 2.39.3-6.1 [202 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libkmod2 amd64 31+20240202-2 [59.6 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libsystemd-shared amd64 255.4-1 [1936 kB] Get:11 http://deb.debian.org/debian sid/main amd64 systemd-dev all 255.4-1 [59.7 kB] Get:12 http://deb.debian.org/debian sid/main amd64 systemd amd64 255.4-1 [3528 kB] Get:13 http://deb.debian.org/debian sid/main amd64 systemd-sysv amd64 255.4-1 [50.4 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libdbus-1-3 amd64 1.14.10-4 [203 kB] Get:15 http://deb.debian.org/debian sid/main amd64 dbus-bin amd64 1.14.10-4 [106 kB] Get:16 http://deb.debian.org/debian sid/main amd64 dbus-session-bus-common all 1.14.10-4 [79.0 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.6.0-1 [101 kB] Get:18 http://deb.debian.org/debian sid/main amd64 dbus-daemon amd64 1.14.10-4 [184 kB] Get:19 http://deb.debian.org/debian sid/main amd64 adduser all 3.137 [140 kB] Get:20 http://deb.debian.org/debian sid/main amd64 dbus-system-bus-common all 1.14.10-4 [80.1 kB] Get:21 http://deb.debian.org/debian sid/main amd64 dbus amd64 1.14.10-4 [98.3 kB] Get:22 http://deb.debian.org/debian sid/main amd64 fonts-lato all 2.015-1 [2780 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libpython3.11-minimal amd64 3.11.8-2 [817 kB] Get:24 http://deb.debian.org/debian sid/main amd64 python3.11-minimal amd64 3.11.8-2 [2037 kB] Get:25 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.11.6-1 [26.2 kB] Get:26 http://deb.debian.org/debian sid/main amd64 media-types all 10.1.0 [26.9 kB] Get:27 http://deb.debian.org/debian sid/main amd64 netbase all 6.4 [12.8 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.4+20240113-1 [135 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.20.1-5+b1 [33.2 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.20.1-5+b1 [80.0 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:32 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.20.1-5+b1 [333 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.20.1-5+b1 [135 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libtirpc-common all 1.3.4+ds-1.1 [10.8 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libtirpc3 amd64 1.3.4+ds-1 [82.1 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libnsl2 amd64 1.3.0-3 [40.0 kB] Get:37 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-3.1 [69.2 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libreadline8t64 amd64 8.2-3.1 [167 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.45.1-1 [894 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libpython3.11-stdlib amd64 3.11.8-2 [1827 kB] Get:41 http://deb.debian.org/debian sid/main amd64 python3.11 amd64 3.11.8-2 [597 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.11.6-1 [9224 B] Get:43 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.11.6-1 [26.2 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libpython3.12-minimal amd64 3.12.2-3 [807 kB] Get:45 http://deb.debian.org/debian sid/main amd64 python3.12-minimal amd64 3.12.2-3 [2187 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libproc2-0 amd64 2:4.0.4-4 [64.6 kB] Get:47 http://deb.debian.org/debian sid/main amd64 procps amd64 2:4.0.4-4 [880 kB] Get:48 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.1.5-1.1 [1241 kB] Get:49 http://deb.debian.org/debian sid/main amd64 ca-certificates all 20240203 [158 kB] Get:50 http://deb.debian.org/debian sid/main amd64 libpam-systemd amd64 255.4-1 [260 kB] Get:51 http://deb.debian.org/debian sid/main amd64 libgdk-pixbuf2.0-common all 2.42.10+dfsg-3 [307 kB] Get:52 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.78.4-2.1 [1454 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get:54 http://deb.debian.org/debian sid/main amd64 libxml2 amd64 2.9.14+dfsg-1.3+b2 [692 kB] Get:55 http://deb.debian.org/debian sid/main amd64 shared-mime-info amd64 2.4-1 [751 kB] Get:56 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.1.5-2+b2 [167 kB] Get:57 http://deb.debian.org/debian sid/main amd64 libpng16-16 amd64 1.6.43-1 [277 kB] Get:58 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.19-1 [41.4 kB] Get:59 http://deb.debian.org/debian sid/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get:60 http://deb.debian.org/debian sid/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get:61 http://deb.debian.org/debian sid/main amd64 libsharpyuv0 amd64 1.3.2-0.4 [108 kB] Get:62 http://deb.debian.org/debian sid/main amd64 libwebp7 amd64 1.3.2-0.4 [308 kB] Get:63 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.5.1+git230720-4 [322 kB] Get:64 http://deb.debian.org/debian sid/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.10+dfsg-3+b1 [138 kB] Get:65 http://deb.debian.org/debian sid/main amd64 gtk-update-icon-cache amd64 3.24.41-1.1 [45.7 kB] Get:66 http://deb.debian.org/debian sid/main amd64 hicolor-icon-theme all 0.17-2 [11.4 kB] Get:67 http://deb.debian.org/debian sid/main amd64 adwaita-icon-theme all 46~beta-4 [614 kB] Get:68 http://deb.debian.org/debian sid/main amd64 at-spi2-common all 2.51.90-1 [165 kB] Get:69 http://deb.debian.org/debian sid/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2+b1 [1033 kB] Get:70 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2+b3 [305 kB] Get:71 http://deb.debian.org/debian sid/main amd64 libfreetype6 amd64 2.13.2+dfsg-1+b1 [439 kB] Get:72 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:73 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:74 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.15.0-1 [317 kB] Get:75 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.15.0-1 [388 kB] Get:76 http://deb.debian.org/debian sid/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:77 http://deb.debian.org/debian sid/main amd64 libbsd0 amd64 0.12.1-1 [129 kB] Get:78 http://deb.debian.org/debian sid/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:79 http://deb.debian.org/debian sid/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:80 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:81 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.7-1 [802 kB] Get:82 http://deb.debian.org/debian sid/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:83 http://deb.debian.org/debian sid/main amd64 libxft2 amd64 2.3.6-1+b1 [54.2 kB] Get:84 http://deb.debian.org/debian sid/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:85 http://deb.debian.org/debian sid/main amd64 x11-common all 1:7.7+23 [252 kB] Get:86 http://deb.debian.org/debian sid/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:87 http://deb.debian.org/debian sid/main amd64 libtk8.6 amd64 8.6.13-2+b1 [783 kB] Get:88 http://deb.debian.org/debian sid/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-7 [586 kB] Get:89 http://deb.debian.org/debian sid/main amd64 blt amd64 2.5.3+dfsg-7 [6024 B] Get:90 http://deb.debian.org/debian sid/main amd64 dbus-user-session amd64 1.14.10-4 [78.9 kB] Get:91 http://deb.debian.org/debian sid/main amd64 libdconf1 amd64 0.40.0-4+b1 [41.8 kB] Get:92 http://deb.debian.org/debian sid/main amd64 dconf-service amd64 0.40.0-4+b1 [32.5 kB] Get:93 http://deb.debian.org/debian sid/main amd64 dconf-gsettings-backend amd64 0.40.0-4+b1 [28.7 kB] Get:94 http://deb.debian.org/debian sid/main amd64 fontconfig amd64 2.15.0-1 [462 kB] Get:95 http://deb.debian.org/debian sid/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get:96 http://deb.debian.org/debian sid/main amd64 fonts-lyx all 2.4.0~RC3-1 [189 kB] Get:97 http://deb.debian.org/debian sid/main amd64 gcc-13-base amd64 13.2.0-16.1 [43.3 kB] Get:98 http://deb.debian.org/debian sid/main amd64 libaec0 amd64 1.1.2-1 [23.4 kB] Get:99 http://deb.debian.org/debian sid/main amd64 libann-cctbx0 amd64 1.1.2+doc-9+b1 [32.4 kB] Get:100 http://deb.debian.org/debian sid/main amd64 libann-cctbx-dev amd64 1.1.2+doc-9+b1 [44.6 kB] Get:101 http://deb.debian.org/debian sid/main amd64 libantlr3c-3.4-0 amd64 3.4+dfsg-4 [49.5 kB] Get:102 http://deb.debian.org/debian sid/main amd64 libasan8 amd64 14-20240221-2.1 [2724 kB] Get:103 http://deb.debian.org/debian sid/main amd64 libatk1.0-0 amd64 2.50.0-1+b1 [50.1 kB] Get:104 http://deb.debian.org/debian sid/main amd64 libxi6 amd64 2:1.8.1-1 [79.0 kB] Get:105 http://deb.debian.org/debian sid/main amd64 libatspi2.0-0 amd64 2.50.0-1+b1 [74.2 kB] Get:106 http://deb.debian.org/debian sid/main amd64 libatk-bridge2.0-0 amd64 2.50.0-1+b1 [65.7 kB] Get:107 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14-20240221-2.1 [9212 B] Get:108 http://deb.debian.org/debian sid/main amd64 libavahi-common-data amd64 0.8-13+b1 [111 kB] Get:109 http://deb.debian.org/debian sid/main amd64 libavahi-common3 amd64 0.8-13+b1 [43.3 kB] Get:110 http://deb.debian.org/debian sid/main amd64 libavahi-client3 amd64 0.8-13+b1 [47.1 kB] Get:111 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:112 http://deb.debian.org/debian sid/main amd64 libboost-python1.83.0 amd64 1.83.0-2.1 [351 kB] Get:113 http://deb.debian.org/debian sid/main amd64 libboost-numpy1.83.0 amd64 1.83.0-2.1 [247 kB] Get:114 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14-20240221-2.1 [136 kB] Get:115 http://deb.debian.org/debian sid/main amd64 libitm1 amd64 14-20240221-2.1 [25.8 kB] Get:116 http://deb.debian.org/debian sid/main amd64 liblsan0 amd64 14-20240221-2.1 [1200 kB] Get:117 http://deb.debian.org/debian sid/main amd64 libtsan2 amd64 14-20240221-2.1 [2454 kB] Get:118 http://deb.debian.org/debian sid/main amd64 libubsan1 amd64 14-20240221-2.1 [1071 kB] Get:119 http://deb.debian.org/debian sid/main amd64 libhwasan0 amd64 14-20240221-2.1 [1485 kB] Get:120 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 14-20240221-2.1 [147 kB] Get:121 http://deb.debian.org/debian sid/main amd64 libgcc-13-dev amd64 13.2.0-16.1 [2543 kB] Get:122 http://deb.debian.org/debian sid/main amd64 libc-dev-bin amd64 2.37-15.1 [47.1 kB] Get:123 http://deb.debian.org/debian sid/main amd64 linux-libc-dev all 6.6.15-2 [2247 kB] Get:124 http://deb.debian.org/debian sid/main amd64 libcrypt-dev amd64 1:4.4.36-4 [119 kB] Get:125 http://deb.debian.org/debian sid/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Get:126 http://deb.debian.org/debian sid/main amd64 libc6-dev amd64 2.37-15.1 [1905 kB] Get:127 http://deb.debian.org/debian sid/main amd64 libstdc++-13-dev amd64 13.2.0-16.1 [2210 kB] Get:128 http://deb.debian.org/debian sid/main amd64 libboost1.83-dev amd64 1.83.0-2.1 [10.6 MB] Get:129 http://deb.debian.org/debian sid/main amd64 libpython3.11t64 amd64 3.11.8-2 [1992 kB] Get:130 http://deb.debian.org/debian sid/main amd64 libexpat1-dev amd64 2.6.0-1 [154 kB] Get:131 http://deb.debian.org/debian sid/main amd64 zlib1g-dev amd64 1:1.3.dfsg-3+b1 [919 kB] Get:132 http://deb.debian.org/debian sid/main amd64 libpython3.11-dev amd64 3.11.8-2 [4575 kB] Get:133 http://deb.debian.org/debian sid/main amd64 libpython3-dev amd64 3.11.6-1 [9460 B] Get:134 http://deb.debian.org/debian sid/main amd64 python3.11-dev amd64 3.11.8-2 [509 kB] Get:135 http://deb.debian.org/debian sid/main amd64 python3-lib2to3 all 3.11.5-1 [77.5 kB] Get:136 http://deb.debian.org/debian sid/main amd64 python3-distutils all 3.11.5-1 [131 kB] Get:137 http://deb.debian.org/debian sid/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get:138 http://deb.debian.org/debian sid/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get:139 http://deb.debian.org/debian sid/main amd64 libjs-sphinxdoc all 7.2.6-4 [150 kB] Get:140 http://deb.debian.org/debian sid/main amd64 python3-dev amd64 3.11.6-1 [26.1 kB] Get:141 http://deb.debian.org/debian sid/main amd64 libboost-python1.83-dev amd64 1.83.0-2.1 [379 kB] Get:142 http://deb.debian.org/debian sid/main amd64 libboost-python-dev amd64 1.83.0.2+b2 [3892 B] Get:143 http://deb.debian.org/debian sid/main amd64 libboost-thread1.83.0 amd64 1.83.0-2.1 [269 kB] Get:144 http://deb.debian.org/debian sid/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get:145 http://deb.debian.org/debian sid/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:146 http://deb.debian.org/debian sid/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:147 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.0-1+b1 [531 kB] Get:148 http://deb.debian.org/debian sid/main amd64 libcairo-gobject2 amd64 1.18.0-1+b1 [129 kB] Get:149 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-4+b1 [19.7 kB] Get:150 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-4+b1 [57.0 kB] Get:151 http://deb.debian.org/debian sid/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5+b3 [184 kB] Get:152 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.59.0-1 [74.3 kB] Get:153 http://deb.debian.org/debian sid/main amd64 libpsl5 amd64 0.21.2-1+b1 [59.1 kB] Get:154 http://deb.debian.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:155 http://deb.debian.org/debian sid/main amd64 libssh2-1 amd64 1.11.0-4 [215 kB] Get:156 http://deb.debian.org/debian sid/main amd64 libcurl4 amd64 8.6.0-3 [430 kB] Get:157 http://deb.debian.org/debian sid/main amd64 libsz2 amd64 1.1.2-1 [7684 B] Get:158 http://deb.debian.org/debian sid/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-3.1 [1242 kB] Get:159 http://deb.debian.org/debian sid/main amd64 libcbf1t64 amd64 0.9.7+dfsg1-3.1 [359 kB] Get:160 http://deb.debian.org/debian sid/main amd64 libccp4-data all 8.0.0-2 [62.3 kB] Get:161 http://deb.debian.org/debian sid/main amd64 libccp4c0 amd64 8.0.0-2 [88.5 kB] Get:162 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14-20240221-2.1 [836 kB] Get:163 http://deb.debian.org/debian sid/main amd64 libmmdb2-0 amd64 2.0.22-1+b1 [341 kB] Get:164 http://deb.debian.org/debian sid/main amd64 libccp4f0 amd64 8.0.0-2 [210 kB] Get:165 http://deb.debian.org/debian sid/main amd64 libccp4-dev amd64 8.0.0-2 [42.8 kB] Get:166 http://deb.debian.org/debian sid/main amd64 libcctbx0 amd64 2023.12+ds2+~3.17.0+ds1-4 [2375 kB] Get:167 http://deb.debian.org/debian sid/main amd64 libcctbx-dev amd64 2023.12+ds2+~3.17.0+ds1-4 [1157 kB] Get:168 http://deb.debian.org/debian sid/main amd64 libcloudproviders0 amd64 0.3.5-1 [28.7 kB] Get:169 http://deb.debian.org/debian sid/main amd64 liblcms2-2 amd64 2.14-2+b1 [154 kB] Get:170 http://deb.debian.org/debian sid/main amd64 libcolord2 amd64 1.4.7-1 [139 kB] Get:171 http://deb.debian.org/debian sid/main amd64 libcups2 amd64 2.4.7-1+b1 [247 kB] Get:172 http://deb.debian.org/debian sid/main amd64 libcurl3-gnutls amd64 8.6.0-3 [421 kB] Get:173 http://deb.debian.org/debian sid/main amd64 libdatrie1 amd64 0.2.13-3 [37.7 kB] Get:174 http://deb.debian.org/debian sid/main amd64 libdouble-conversion3 amd64 3.3.0-1+b1 [41.0 kB] Get:175 http://deb.debian.org/debian sid/main amd64 libdrm-common all 2.4.120-2 [7688 B] Get:176 http://deb.debian.org/debian sid/main amd64 libdrm2 amd64 2.4.120-2 [38.1 kB] Get:177 http://deb.debian.org/debian sid/main amd64 libdrm-amdgpu1 amd64 2.4.120-2 [21.4 kB] Get:178 http://deb.debian.org/debian sid/main amd64 libpciaccess0 amd64 0.17-3 [51.6 kB] Get:179 http://deb.debian.org/debian sid/main amd64 libdrm-intel1 amd64 2.4.120-2 [62.7 kB] Get:180 http://deb.debian.org/debian sid/main amd64 libdrm-nouveau2 amd64 2.4.120-2 [19.3 kB] Get:181 http://deb.debian.org/debian sid/main amd64 libdrm-radeon1 amd64 2.4.120-2 [22.2 kB] Get:182 http://deb.debian.org/debian sid/main amd64 libedit2 amd64 3.1-20230828-1 [93.1 kB] Get:183 http://deb.debian.org/debian sid/main amd64 libwayland-server0 amd64 1.22.0-2.1+b1 [33.0 kB] Get:184 http://deb.debian.org/debian sid/main amd64 libxcb-randr0 amd64 1.15-1 [117 kB] Get:185 http://deb.debian.org/debian sid/main amd64 libgbm1 amd64 24.0.2-1 [40.6 kB] Get:186 http://deb.debian.org/debian sid/main amd64 libglapi-mesa amd64 24.0.2-1 [36.1 kB] Get:187 http://deb.debian.org/debian sid/main amd64 libwayland-client0 amd64 1.22.0-2.1+b1 [25.7 kB] Get:188 http://deb.debian.org/debian sid/main amd64 libx11-xcb1 amd64 2:1.8.7-1 [232 kB] Get:189 http://deb.debian.org/debian sid/main amd64 libxcb-dri2-0 amd64 1.15-1 [107 kB] Get:190 http://deb.debian.org/debian sid/main amd64 libxcb-dri3-0 amd64 1.15-1 [107 kB] Get:191 http://deb.debian.org/debian sid/main amd64 libxcb-present0 amd64 1.15-1 [105 kB] Get:192 http://deb.debian.org/debian sid/main amd64 libxcb-sync1 amd64 1.15-1 [109 kB] Get:193 http://deb.debian.org/debian sid/main amd64 libxcb-xfixes0 amd64 1.15-1 [109 kB] Get:194 http://deb.debian.org/debian sid/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get:195 http://deb.debian.org/debian sid/main amd64 libegl-mesa0 amd64 24.0.2-1 [119 kB] Get:196 http://deb.debian.org/debian sid/main amd64 libelf1t64 amd64 0.190-1.1 [176 kB] Get:197 http://deb.debian.org/debian sid/main amd64 libepoxy0 amd64 1.5.10-1+b2 [191 kB] Get:198 http://deb.debian.org/debian sid/main amd64 libevdev2 amd64 1.13.1+dfsg-1 [32.0 kB] Get:199 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.13-3+b1 [71.4 kB] Get:200 http://deb.debian.org/debian sid/main amd64 libglvnd0 amd64 1.7.0-1 [51.3 kB] Get:201 http://deb.debian.org/debian sid/main amd64 libxcb-glx0 amd64 1.15-1 [122 kB] Get:202 http://deb.debian.org/debian sid/main amd64 libxfixes3 amd64 1:6.0.0-2 [22.7 kB] Get:203 http://deb.debian.org/debian sid/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:204 http://deb.debian.org/debian sid/main amd64 libvulkan1 amd64 1.3.275.0-1 [124 kB] Get:205 http://deb.debian.org/debian sid/main amd64 libz3-4 amd64 4.8.12-3.1+b2 [7346 kB] Get:206 http://deb.debian.org/debian sid/main amd64 libllvm17 amd64 1:17.0.6-5 [23.7 MB] Get:207 http://deb.debian.org/debian sid/main amd64 libsensors-config all 1:3.6.0-9 [14.6 kB] Get:208 http://deb.debian.org/debian sid/main amd64 libsensors5 amd64 1:3.6.0-9 [34.6 kB] Get:209 http://deb.debian.org/debian sid/main amd64 libgl1-mesa-dri amd64 24.0.2-1 [8278 kB] Get:210 http://deb.debian.org/debian sid/main amd64 libglx-mesa0 amd64 24.0.2-1 [151 kB] Get:211 http://deb.debian.org/debian sid/main amd64 libglx0 amd64 1.7.0-1 [34.7 kB] Get:212 http://deb.debian.org/debian sid/main amd64 libgl1 amd64 1.7.0-1 [89.7 kB] Get:213 http://deb.debian.org/debian sid/main amd64 libglew2.2 amd64 2.2.0-4+b1 [175 kB] Get:214 http://deb.debian.org/debian sid/main amd64 libopengl0 amd64 1.7.0-1 [30.8 kB] Get:215 http://deb.debian.org/debian sid/main amd64 libglu1-mesa amd64 9.0.2-1.1 [178 kB] Get:216 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get:217 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 8.3.0-2 [2213 kB] Get:218 http://deb.debian.org/debian sid/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:219 http://deb.debian.org/debian sid/main amd64 libthai0 amd64 0.1.29-2 [49.1 kB] Get:220 http://deb.debian.org/debian sid/main amd64 libpango-1.0-0 amd64 1.52.0+ds-1 [216 kB] Get:221 http://deb.debian.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.52.0+ds-1 [48.0 kB] Get:222 http://deb.debian.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.52.0+ds-1 [35.0 kB] Get:223 http://deb.debian.org/debian sid/main amd64 libwayland-cursor0 amd64 1.22.0-2.1+b1 [11.3 kB] Get:224 http://deb.debian.org/debian sid/main amd64 libwayland-egl1 amd64 1.22.0-2.1+b1 [5640 B] Get:225 http://deb.debian.org/debian sid/main amd64 libxcomposite1 amd64 1:0.4.5-1 [16.6 kB] Get:226 http://deb.debian.org/debian sid/main amd64 libxcursor1 amd64 1:1.2.1-1 [40.9 kB] Get:227 http://deb.debian.org/debian sid/main amd64 libxdamage1 amd64 1:1.1.6-1 [15.1 kB] Get:228 http://deb.debian.org/debian sid/main amd64 libxinerama1 amd64 2:1.1.4-3 [17.8 kB] Get:229 http://deb.debian.org/debian sid/main amd64 xkb-data all 2.41-2 [795 kB] Get:230 http://deb.debian.org/debian sid/main amd64 libxkbcommon0 amd64 1.6.0-1 [108 kB] Get:231 http://deb.debian.org/debian sid/main amd64 libxrandr2 amd64 2:1.5.2-2+b1 [39.2 kB] Get:232 http://deb.debian.org/debian sid/main amd64 libgtk-3-common all 3.24.41-1.1 [4634 kB] Get:233 http://deb.debian.org/debian sid/main amd64 libgtk-3-0 amd64 3.24.41-1 [2726 kB] Get:234 http://deb.debian.org/debian sid/main amd64 libgudev-1.0-0 amd64 238-3 [14.3 kB] Get:235 http://deb.debian.org/debian sid/main amd64 libhdf5-hl-100 amd64 1.10.10+repack-3+b1 [63.3 kB] Get:236 http://deb.debian.org/debian sid/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get:237 http://deb.debian.org/debian sid/main amd64 libimagequant0 amd64 2.18.0-1 [35.0 kB] Get:238 http://deb.debian.org/debian sid/main amd64 libwacom-common all 2.10.0-1 [62.4 kB] Get:239 http://deb.debian.org/debian sid/main amd64 libwacom9 amd64 2.10.0-1 [22.4 kB] Get:240 http://deb.debian.org/debian sid/main amd64 libinput-bin amd64 1.25.0-1 [24.6 kB] Get:241 http://deb.debian.org/debian sid/main amd64 libmtdev1 amd64 1.1.6-1+b1 [22.2 kB] Get:242 http://deb.debian.org/debian sid/main amd64 libinput10 amd64 1.25.0-1 [128 kB] Get:243 http://deb.debian.org/debian sid/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get:244 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:245 http://deb.debian.org/debian sid/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1+b1 [29.1 kB] Get:246 http://deb.debian.org/debian sid/main amd64 liblzf1 amd64 3.6-4 [10.1 kB] Get:247 http://deb.debian.org/debian sid/main amd64 libmd4c0 amd64 0.4.8-1+b1 [45.1 kB] Get:248 http://deb.debian.org/debian sid/main amd64 libnetcdf19 amd64 1:4.9.2-3+b1 [471 kB] Get:249 http://deb.debian.org/debian sid/main amd64 libnotify4 amd64 0.8.3-1 [25.6 kB] Get:250 http://deb.debian.org/debian sid/main amd64 libopenjp2-7 amd64 2.5.0-2+b2 [190 kB] Get:251 http://deb.debian.org/debian sid/main amd64 libpcre2-16-0 amd64 10.42-4+b1 [246 kB] Get:252 http://deb.debian.org/debian sid/main amd64 libpcre2-32-0 amd64 10.42-4+b1 [234 kB] Get:253 http://deb.debian.org/debian sid/main amd64 libpython3.12-stdlib amd64 3.12.2-3 [1929 kB] Get:254 http://deb.debian.org/debian sid/main amd64 libqhull-r8.0 amd64 2020.2-6+b1 [245 kB] Get:255 http://deb.debian.org/debian sid/main amd64 libqt5core5a amd64 5.15.10+dfsg-7 [1834 kB] Get:256 http://deb.debian.org/debian sid/main amd64 libqt5dbus5 amd64 5.15.10+dfsg-7 [213 kB] Get:257 http://deb.debian.org/debian sid/main amd64 libegl1 amd64 1.7.0-1 [34.0 kB] Get:258 http://deb.debian.org/debian sid/main amd64 libqt5network5 amd64 5.15.10+dfsg-7 [676 kB] Get:259 http://deb.debian.org/debian sid/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:260 http://deb.debian.org/debian sid/main amd64 libxcb-icccm4 amd64 0.4.1-1.1+b1 [26.8 kB] Get:261 http://deb.debian.org/debian sid/main amd64 libxcb-util1 amd64 0.4.0-1+b1 [23.2 kB] Get:262 http://deb.debian.org/debian sid/main amd64 libxcb-image0 amd64 0.4.0-2+b1 [22.2 kB] Get:263 http://deb.debian.org/debian sid/main amd64 libxcb-keysyms1 amd64 0.4.0-1+b2 [16.4 kB] Get:264 http://deb.debian.org/debian sid/main amd64 libxcb-render-util0 amd64 0.3.9-1+b1 [18.3 kB] Get:265 http://deb.debian.org/debian sid/main amd64 libxcb-shape0 amd64 1.15-1 [106 kB] Get:266 http://deb.debian.org/debian sid/main amd64 libxcb-xinerama0 amd64 1.15-1 [105 kB] Get:267 http://deb.debian.org/debian sid/main amd64 libxcb-xinput0 amd64 1.15-1 [130 kB] Get:268 http://deb.debian.org/debian sid/main amd64 libxcb-xkb1 amd64 1.15-1 [129 kB] Get:269 http://deb.debian.org/debian sid/main amd64 libxkbcommon-x11-0 amd64 1.6.0-1 [16.0 kB] Get:270 http://deb.debian.org/debian sid/main amd64 libqt5gui5 amd64 5.15.10+dfsg-7 [3442 kB] Get:271 http://deb.debian.org/debian sid/main amd64 libqt5widgets5 amd64 5.15.10+dfsg-7 [2385 kB] Get:272 http://deb.debian.org/debian sid/main amd64 libqt5xml5 amd64 5.15.10+dfsg-7 [123 kB] Get:273 http://deb.debian.org/debian sid/main amd64 libqt5designer5 amd64 5.15.10-6 [2749 kB] Get:274 http://deb.debian.org/debian sid/main amd64 libqt5sql5 amd64 5.15.10+dfsg-7 [123 kB] Get:275 http://deb.debian.org/debian sid/main amd64 libqt5help5 amd64 5.15.10-6 [149 kB] Get:276 http://deb.debian.org/debian sid/main amd64 libqt5opengl5 amd64 5.15.10+dfsg-7 [149 kB] Get:277 http://deb.debian.org/debian sid/main amd64 libqt5printsupport5 amd64 5.15.10+dfsg-7 [203 kB] Get:278 http://deb.debian.org/debian sid/main amd64 libqt5test5 amd64 5.15.10+dfsg-7 [148 kB] Get:279 http://deb.debian.org/debian sid/main amd64 libraqm0 amd64 0.10.1-1+b1 [14.2 kB] Get:280 http://deb.debian.org/debian sid/main amd64 libssm2 amd64 1.4.0-2+b1 [83.4 kB] Get:281 http://deb.debian.org/debian sid/main amd64 libwebpdemux2 amd64 1.3.2-0.4 [107 kB] Get:282 http://deb.debian.org/debian sid/main amd64 libwebpmux3 amd64 1.3.2-0.4 [120 kB] Get:283 http://deb.debian.org/debian sid/main amd64 libwxbase3.2-1 amd64 3.2.4+dfsg-3 [1011 kB] Get:284 http://deb.debian.org/debian sid/main amd64 libxtst6 amd64 2:1.2.3-1.1 [28.0 kB] Get:285 http://deb.debian.org/debian sid/main amd64 libwxgtk3.2-1 amd64 3.2.4+dfsg-3 [4558 kB] Get:286 http://deb.debian.org/debian sid/main amd64 libwxgtk-gl3.2-1 amd64 3.2.4+dfsg-3 [81.3 kB] Get:287 http://deb.debian.org/debian sid/main amd64 libxslt1.1 amd64 1.1.35-1 [242 kB] Get:288 http://deb.debian.org/debian sid/main amd64 pymol-data all 2.5.0+dfsg-1 [1401 kB] Get:289 http://deb.debian.org/debian sid/main amd64 python-matplotlib-data all 3.6.3-1 [2744 kB] Get:290 http://deb.debian.org/debian sid/main amd64 python3-appdirs all 1.4.4-4 [12.5 kB] Get:291 http://deb.debian.org/debian sid/main amd64 python3-attr all 23.2.0-2 [65.5 kB] Get:292 http://deb.debian.org/debian sid/main amd64 python3-brotli amd64 1.1.0-2+b3 [312 kB] Get:293 http://deb.debian.org/debian sid/main amd64 python3-pycbf amd64 0.9.7+dfsg1-3.1 [193 kB] Get:294 http://deb.debian.org/debian sid/main amd64 python3-pkg-resources all 68.1.2-2 [241 kB] Get:295 http://deb.debian.org/debian sid/main amd64 python3.12 amd64 3.12.2-3 [653 kB] Get:296 http://deb.debian.org/debian sid/main amd64 python3-numpy amd64 1:1.24.2-2 [6299 kB] Get:297 http://deb.debian.org/debian sid/main amd64 python3-h5py-serial amd64 3.10.0-1 [1399 kB] Get:298 http://deb.debian.org/debian sid/main amd64 python3-h5py all 3.10.0-1 [14.4 kB] Get:299 http://deb.debian.org/debian sid/main amd64 python3-six all 1.16.0-4 [17.5 kB] Get:300 http://deb.debian.org/debian sid/main amd64 python3-dateutil all 2.8.2-3 [78.4 kB] Get:301 http://deb.debian.org/debian sid/main amd64 python3-pil amd64 10.2.0-1 [525 kB] Get:302 http://deb.debian.org/debian sid/main amd64 python3-tk amd64 3.11.5-1 [108 kB] Get:303 http://deb.debian.org/debian sid/main amd64 python3-pil.imagetk amd64 10.2.0-1 [77.7 kB] Get:304 http://deb.debian.org/debian sid/main amd64 python3-pyparsing all 3.1.1-1 [145 kB] Get:305 http://deb.debian.org/debian sid/main amd64 python3-contourpy amd64 1.0.7-1+b2 [287 kB] Get:306 http://deb.debian.org/debian sid/main amd64 python3-cycler all 0.11.0-1 [8020 B] Get:307 http://deb.debian.org/debian sid/main amd64 python3-decorator all 5.1.1-5 [15.1 kB] Get:308 http://deb.debian.org/debian sid/main amd64 python3-scipy amd64 1.11.4-6 [19.5 MB] Get:309 http://deb.debian.org/debian sid/main amd64 python3-ufolib2 all 0.16.0+dfsg1-1 [32.9 kB] Get:310 http://deb.debian.org/debian sid/main amd64 python3-mpmath all 1.2.1-2 [418 kB] Get:311 http://deb.debian.org/debian sid/main amd64 python3-sympy all 1.12-7 [3869 kB] Get:312 http://deb.debian.org/debian sid/main amd64 python3-tz all 2024.1-2 [30.9 kB] Get:313 http://deb.debian.org/debian sid/main amd64 python3-fs all 2.4.16-3 [95.3 kB] Get:314 http://deb.debian.org/debian sid/main amd64 python3-lxml amd64 5.1.0-1 [2092 kB] Get:315 http://deb.debian.org/debian sid/main amd64 python3-lz4 amd64 4.0.2+dfsg-1+b3 [25.5 kB] Get:316 http://deb.debian.org/debian sid/main amd64 python3-unicodedata2 amd64 15.1.0+ds-1+b1 [299 kB] Get:317 http://deb.debian.org/debian sid/main amd64 unicode-data all 15.1.0-1 [8547 kB] Get:318 http://deb.debian.org/debian sid/main amd64 python3-fonttools amd64 4.46.0-1 [1623 kB] Get:319 http://deb.debian.org/debian sid/main amd64 python3-kiwisolver amd64 1.4.4-1+b2 [80.3 kB] Get:320 http://deb.debian.org/debian sid/main amd64 python3-packaging all 23.2-1 [44.8 kB] Get:321 http://deb.debian.org/debian sid/main amd64 python3-matplotlib amd64 3.6.3-1+b2 [8166 kB] Get:322 http://deb.debian.org/debian sid/main amd64 sphinx-rtd-theme-common all 2.0.0+dfsg-1 [1021 kB] Get:323 http://deb.debian.org/debian sid/main amd64 python3-mrcfile all 1.4.3-3 [113 kB] Get:324 http://deb.debian.org/debian sid/main amd64 python3-pint all 0.19.2-1 [186 kB] Get:325 http://deb.debian.org/debian sid/main amd64 python3-nxmx all 0.0.3-2 [15.1 kB] Get:326 http://deb.debian.org/debian sid/main amd64 python3-orderedset amd64 2.0.3+ds1-2 [91.8 kB] Get:327 http://deb.debian.org/debian sid/main amd64 python3-procrunner all 2.3.3-1 [13.8 kB] Get:328 http://deb.debian.org/debian sid/main amd64 python3-opengl all 3.1.7+dfsg-1 [604 kB] Get:329 http://deb.debian.org/debian sid/main amd64 python3-pyqt5.sip amd64 12.13.0-1+b1 [79.5 kB] Get:330 http://deb.debian.org/debian sid/main amd64 python3-pyqt5 amd64 5.15.10+dfsg-1 [2503 kB] Get:331 http://deb.debian.org/debian sid/main amd64 python3-pyqt5.qtopengl amd64 5.15.10+dfsg-1 [207 kB] Get:332 http://deb.debian.org/debian sid/main amd64 python3-pymol amd64 2.5.0+dfsg-1+b4 [6971 kB] Get:333 http://deb.debian.org/debian sid/main amd64 python3-certifi all 2023.11.17-1 [155 kB] Get:334 http://deb.debian.org/debian sid/main amd64 python3-charset-normalizer all 3.3.2-1 [51.6 kB] Get:335 http://deb.debian.org/debian sid/main amd64 python3-idna all 3.6-2 [37.0 kB] Get:336 http://deb.debian.org/debian sid/main amd64 python3-urllib3 all 1.26.18-2 [116 kB] Get:337 http://deb.debian.org/debian sid/main amd64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get:338 http://deb.debian.org/debian sid/main amd64 python3-requests all 2.31.0+dfsg-1 [68.6 kB] Get:339 http://deb.debian.org/debian sid/main amd64 python3-tqdm all 4.64.1-2 [93.7 kB] Get:340 http://deb.debian.org/debian sid/main amd64 python3-wxgtk4.0 amd64 4.2.1+dfsg-3 [10.1 MB] Get:341 http://deb.debian.org/debian sid/main amd64 python3-cctbx amd64 2023.12+ds2+~3.17.0+ds1-4 [50.1 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 310 MB in 8s (41.3 MB/s) dpkg: libssl3:amd64: dependency problems, but removing anyway as you requested: coreutils depends on libssl3 (>= 3.0.0). (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 ... 5235 files and directories currently installed.) Removing libssl3:amd64 (3.1.5-1) ... Selecting previously unselected package libssl3t64:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5222 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.1.5-1.1_amd64.deb ... Unpacking libssl3t64:amd64 (3.1.5-1.1) ... Setting up libssl3t64:amd64 (3.1.5-1.1) ... Selecting previously unselected package libapparmor1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5237 files and directories currently installed.) Preparing to unpack .../00-libapparmor1_3.0.12-1+b2_amd64.deb ... Unpacking libapparmor1:amd64 (3.0.12-1+b2) ... Selecting previously unselected package libargon2-1:amd64. Preparing to unpack .../01-libargon2-1_0~20190702+dfsg-4+b1_amd64.deb ... Unpacking libargon2-1:amd64 (0~20190702+dfsg-4+b1) ... Selecting previously unselected package dmsetup. Preparing to unpack .../02-dmsetup_2%3a1.02.196-1_amd64.deb ... Unpacking dmsetup (2:1.02.196-1) ... Selecting previously unselected package libdevmapper1.02.1:amd64. Preparing to unpack .../03-libdevmapper1.02.1_2%3a1.02.196-1_amd64.deb ... Unpacking libdevmapper1.02.1:amd64 (2:1.02.196-1) ... Selecting previously unselected package libjson-c5:amd64. Preparing to unpack .../04-libjson-c5_0.17-1+b1_amd64.deb ... Unpacking libjson-c5:amd64 (0.17-1+b1) ... Selecting previously unselected package libcryptsetup12:amd64. Preparing to unpack .../05-libcryptsetup12_2%3a2.7.0-1_amd64.deb ... Unpacking libcryptsetup12:amd64 (2:2.7.0-1) ... Selecting previously unselected package libfdisk1:amd64. Preparing to unpack .../06-libfdisk1_2.39.3-6.1_amd64.deb ... Unpacking libfdisk1:amd64 (2.39.3-6.1) ... Selecting previously unselected package libkmod2:amd64. Preparing to unpack .../07-libkmod2_31+20240202-2_amd64.deb ... Unpacking libkmod2:amd64 (31+20240202-2) ... Selecting previously unselected package libsystemd-shared:amd64. Preparing to unpack .../08-libsystemd-shared_255.4-1_amd64.deb ... Unpacking libsystemd-shared:amd64 (255.4-1) ... Selecting previously unselected package systemd-dev. Preparing to unpack .../09-systemd-dev_255.4-1_all.deb ... Unpacking systemd-dev (255.4-1) ... Selecting previously unselected package systemd. Preparing to unpack .../10-systemd_255.4-1_amd64.deb ... Unpacking systemd (255.4-1) ... Setting up libapparmor1:amd64 (3.0.12-1+b2) ... Setting up libargon2-1:amd64 (0~20190702+dfsg-4+b1) ... Setting up libjson-c5:amd64 (0.17-1+b1) ... Setting up libfdisk1:amd64 (2.39.3-6.1) ... Setting up libkmod2:amd64 (31+20240202-2) ... Setting up libsystemd-shared:amd64 (255.4-1) ... Setting up systemd-dev (255.4-1) ... Setting up libdevmapper1.02.1:amd64 (2:1.02.196-1) ... Setting up libcryptsetup12:amd64 (2:2.7.0-1) ... Setting up systemd (255.4-1) ... 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. [ESC][0;1;31m"/home" already exists and is not a directory.[ESC][0m Setting up dmsetup (2:1.02.196-1) ... Selecting previously unselected package systemd-sysv. (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 ... 6330 files and directories currently installed.) Preparing to unpack .../0-systemd-sysv_255.4-1_amd64.deb ... Unpacking systemd-sysv (255.4-1) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../1-libdbus-1-3_1.14.10-4_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.14.10-4) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../2-dbus-bin_1.14.10-4_amd64.deb ... Unpacking dbus-bin (1.14.10-4) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../3-dbus-session-bus-common_1.14.10-4_all.deb ... Unpacking dbus-session-bus-common (1.14.10-4) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../4-libexpat1_2.6.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.0-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../5-dbus-daemon_1.14.10-4_amd64.deb ... Unpacking dbus-daemon (1.14.10-4) ... Selecting previously unselected package adduser. Preparing to unpack .../6-adduser_3.137_all.deb ... Unpacking adduser (3.137) ... Setting up adduser (3.137) ... Selecting previously unselected package dbus-system-bus-common. (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 ... 6473 files and directories currently installed.) Preparing to unpack .../dbus-system-bus-common_1.14.10-4_all.deb ... Unpacking dbus-system-bus-common (1.14.10-4) ... Selecting previously unselected package dbus. Preparing to unpack .../dbus_1.14.10-4_amd64.deb ... Unpacking dbus (1.14.10-4) ... Selecting previously unselected package fonts-lato. Preparing to unpack .../fonts-lato_2.015-1_all.deb ... Unpacking fonts-lato (2.015-1) ... Selecting previously unselected package libpython3.11-minimal:amd64. Preparing to unpack .../libpython3.11-minimal_3.11.8-2_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.8-2) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.8-2_amd64.deb ... Unpacking python3.11-minimal (3.11.8-2) ... Setting up libpython3.11-minimal:amd64 (3.11.8-2) ... Setting up libexpat1:amd64 (2.6.0-1) ... Setting up python3.11-minimal (3.11.8-2) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6834 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.11.6-1_amd64.deb ... Unpacking python3-minimal (3.11.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... 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Unpacking libgssapi-krb5-2:amd64 (1.20.1-5+b1) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../09-libtirpc-common_1.3.4+ds-1.1_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.1) ... Selecting previously unselected package libtirpc3:amd64. Preparing to unpack .../10-libtirpc3_1.3.4+ds-1_amd64.deb ... Unpacking libtirpc3:amd64 (1.3.4+ds-1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../11-libnsl2_1.3.0-3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3) ... Selecting previously unselected package readline-common. Preparing to unpack .../12-readline-common_8.2-3.1_all.deb ... Unpacking readline-common (8.2-3.1) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../13-libreadline8t64_8.2-3.1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-3.1) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../14-libsqlite3-0_3.45.1-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.45.1-1) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../15-libpython3.11-stdlib_3.11.8-2_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.8-2) ... 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Unpacking python3-cctbx (2023.12+ds2+~3.17.0+ds1-4) ... Setting up media-types (10.1.0) ... Setting up libgraphite2-3:amd64 (1.3.14-2) ... Setting up libboost-python1.83.0 (1.83.0-2.1) ... Setting up liblcms2-2:amd64 (2.14-2+b1) ... Setting up libpixman-1-0:amd64 (0.42.2-1+b1) ... Setting up libsharpyuv0:amd64 (1.3.2-0.4) ... Setting up libwayland-server0:amd64 (1.22.0-2.1+b1) ... Setting up libpciaccess0:amd64 (0.17-3) ... Setting up systemd-sysv (255.4-1) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up libdouble-conversion3:amd64 (3.3.0-1+b1) ... Setting up libkeyutils1:amd64 (1.6.3-3) ... Setting up libpsl5:amd64 (0.21.2-1+b1) ... Setting up fonts-lato (2.015-1) ... Setting up libicu72:amd64 (72.1-4+b1) ... Setting up liblerc4:amd64 (4.0.0+ds-4+b1) ... Setting up libantlr3c-3.4-0:amd64 (3.4+dfsg-4) ... Setting up hicolor-icon-theme (0.17-2) ... Setting up libdatrie1:amd64 (0.2.13-3) ... Setting up libmmdb2-0:amd64 (2.0.22-1+b1) ... Setting up libglvnd0:amd64 (1.7.0-1) ... Setting up libtirpc-common (1.3.4+ds-1.1) ... Setting up fonts-lyx (2.4.0~RC3-1) ... Setting up libbrotli1:amd64 (1.1.0-2+b3) ... Setting up libsqlite3-0:amd64 (3.45.1-1) ... Setting up libgdk-pixbuf2.0-common (2.42.10+dfsg-3) ... Setting up libpython3.12-minimal:amd64 (3.12.2-3) ... Setting up x11-common (1:7.7+23) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of restart. Setting up libsensors-config (1:3.6.0-9) ... Setting up libnghttp2-14:amd64 (1.59.0-1) ... Setting up libdeflate0:amd64 (1.19-1) ... Setting up linux-libc-dev (6.6.15-2) ... Setting up libboost-thread1.83.0:amd64 (1.83.0-2.1) ... Setting up libqhull-r8.0:amd64 (2020.2-6+b1) ... Setting up xkb-data (2.41-2) ... Setting up libccp4-data (8.0.0-2) ... Setting up libgomp1:amd64 (14-20240221-2.1) ... Setting up libjbig0:amd64 (2.1-6.1+b1) ... Setting up libpcre2-16-0:amd64 (10.42-4+b1) ... Setting up libaec0:amd64 (1.1.2-1) ... Setting up libopengl0:amd64 (1.7.0-1) ... Setting up libelf1t64:amd64 (0.190-1.1) ... Setting up libkrb5support0:amd64 (1.20.1-5+b1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-4+b1) ... Setting up unicode-data (15.1.0-1) ... Setting up libboost-numpy1.83.0 (1.83.0-2.1) ... Setting up libz3-4:amd64 (4.8.12-3.1+b2) ... Setting up libpcre2-32-0:amd64 (10.42-4+b1) ... Setting up libglib2.0-0t64:amd64 (2.78.4-2.1) ... Setting up libblas3:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up rpcsvc-proto (1.4.3-1) ... Setting up gcc-13-base:amd64 (13.2.0-16.1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2+b2) ... Setting up libann-cctbx0 (1.1.2+doc-9+b1) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libepoxy0:amd64 (1.5.10-1+b2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libavahi-common-data:amd64 (0.8-13+b1) ... Setting up libdbus-1-3:amd64 (1.14.10-4) ... Setting up liblzf1:amd64 (3.6-4) ... Setting up libfribidi0:amd64 (1.0.13-3+b1) ... Setting up libquadmath0:amd64 (14-20240221-2.1) ... Setting up libimagequant0:amd64 (2.18.0-1) ... Setting up libproc2-0:amd64 (2:4.0.4-4) ... Setting up pymol-data (2.5.0+dfsg-1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16:amd64 (1.6.43-1) ... Setting up libatomic1:amd64 (14-20240221-2.1) ... Setting up libtcl8.6:amd64 (8.6.13+dfsg-2+b1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libccp4c0:amd64 (8.0.0-2) ... Setting up libsensors5:amd64 (1:3.6.0-9) ... Setting up libncursesw6:amd64 (6.4+20240113-1) ... Setting up libk5crypto3:amd64 (1.20.1-5+b1) ... Setting up libglapi-mesa:amd64 (24.0.2-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-4+b1) ... Setting up libgfortran5:amd64 (14-20240221-2.1) ... Setting up libmtdev1:amd64 (1.1.6-1+b1) ... Setting up libvulkan1:amd64 (1.3.275.0-1) ... Setting up libwebp7:amd64 (1.3.2-0.4) ... Setting up libubsan1:amd64 (14-20240221-2.1) ... Setting up libxshmfence1:amd64 (1.3-1) ... Setting up libhwasan0:amd64 (14-20240221-2.1) ... Setting up at-spi2-common (2.51.90-1) ... Setting up libcrypt-dev:amd64 (1:4.4.36-4) ... Setting up libtiff6:amd64 (4.5.1+git230720-4) ... Setting up dbus-session-bus-common (1.14.10-4) ... Setting up libasan8:amd64 (14-20240221-2.1) ... Setting up procps (2:4.0.4-4) ... Setting up libmd4c0:amd64 (0.4.8-1+b1) ... Setting up libopenjp2-7:amd64 (2.5.0-2+b2) ... Setting up libthai-data (0.1.29-2) ... Setting up libssh2-1:amd64 (1.11.0-4) ... Setting up netbase (6.4) ... Setting up libatk1.0-0:amd64 (2.50.0-1+b1) ... Setting up libkrb5-3:amd64 (1.20.1-5+b1) ... Setting up libglu1-mesa:amd64 (9.0.2-1.1) ... Setting up libwayland-egl1:amd64 (1.22.0-2.1+b1) ... Setting up libtsan2:amd64 (14-20240221-2.1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up dbus-system-bus-common (1.14.10-4) ... Setting up libc-dev-bin (2.37-15.1) ... Setting up python-matplotlib-data (3.6.3-1) ... Setting up openssl (3.1.5-1.1) ... Setting up libwebpmux3:amd64 (1.3.2-0.4) ... Setting up libbsd0:amd64 (0.12.1-1) ... Setting up libdrm-common (2.4.120-2) ... Setting up libevdev2:amd64 (1.13.1+dfsg-1) ... Setting up readline-common (8.2-3.1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3+b2) ... Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Setting up sphinx-rtd-theme-common (2.0.0+dfsg-1) ... Setting up dbus-bin (1.14.10-4) ... Setting up libgudev-1.0-0:amd64 (238-3) ... Setting up liblsan0:amd64 (14-20240221-2.1) ... Setting up libsz2:amd64 (1.1.2-1) ... Setting up libitm1:amd64 (14-20240221-2.1) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libann-cctbx-dev (1.1.2+doc-9+b1) ... Setting up libccp4f0:amd64 (8.0.0-2) ... Setting up libwacom-common (2.10.0-1) ... Setting up libxkbcommon0:amd64 (1.6.0-1) ... Setting up libwayland-client0:amd64 (1.22.0-2.1+b1) ... Setting up python3.12-minimal (3.12.2-3) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.12.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.15-1) ... Setting up libxcb-xfixes0:amd64 (1.15-1) ... Setting up libssm2:amd64 (1.4.0-2+b1) ... Setting up libxcb-xinput0:amd64 (1.15-1) ... Setting up libccp4-dev:amd64 (8.0.0-2) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up libwacom9:amd64 (2.10.0-1) ... Setting up fontconfig-config (2.15.0-1) ... Setting up libxcb-glx0:amd64 (1.15-1) ... Setting up libwebpdemux2:amd64 (1.3.2-0.4) ... Setting up libedit2:amd64 (3.1-20230828-1) ... Setting up libxcb-keysyms1:amd64 (0.4.0-1+b2) ... Setting up libxcb-shape0:amd64 (1.15-1) ... Setting up libavahi-common3:amd64 (0.8-13+b1) ... Setting up libcloudproviders0:amd64 (0.3.5-1) ... Setting up libxcb-render-util0:amd64 (0.3.9-1+b1) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libxcb-icccm4:amd64 (0.4.1-1.1+b1) ... Setting up dbus-daemon (1.14.10-4) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5+b3) ... Setting up libcolord2:amd64 (1.4.7-1) ... Setting up libxcb-util1:amd64 (0.4.0-1+b1) ... Setting up libinput-bin (1.25.0-1) ... Setting up libxcb-xkb1:amd64 (1.15-1) ... Setting up libxcb-image0:amd64 (0.4.0-2+b1) ... Setting up libxcb-present0:amd64 (1.15-1) ... Setting up libdconf1:amd64 (0.40.0-4+b1) ... Setting up libthai0:amd64 (0.1.29-2) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libxcb-xinerama0:amd64 (1.15-1) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:amd64 (2.13.2+dfsg-1+b1) ... Setting up libxcb-sync1:amd64 (1.15-1) ... Setting up dbus (1.14.10-4) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-1) ... Setting up libxkbcommon-x11-0:amd64 (1.6.0-1) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-5+b1) ... Setting up libqt5core5a:amd64 (5.15.10+dfsg-7) ... Setting up libjs-sphinxdoc (7.2.6-4) ... Setting up libreadline8t64:amd64 (8.2-3.1) ... Setting up libxcb-dri2-0:amd64 (1.15-1) ... Setting up libdrm2:amd64 (2.4.120-2) ... Setting up libgcc-13-dev:amd64 (13.2.0-16.1) ... Setting up libqt5dbus5:amd64 (5.15.10+dfsg-7) ... Setting up libwayland-cursor0:amd64 (1.22.0-2.1+b1) ... Setting up libxcb-randr0:amd64 (1.15-1) ... Setting up libxslt1.1:amd64 (1.1.35-1) ... Setting up libpam-systemd:amd64 (255.4-1) ... Setting up libcurl4:amd64 (8.6.0-3) ... Setting up libc6-dev:amd64 (2.37-15.1) ... Setting up libx11-6:amd64 (2:1.8.7-1) ... Setting up libharfbuzz0b:amd64 (8.3.0-2) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-3+b1) ... Setting up libfontconfig1:amd64 (2.15.0-1) ... Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-3.1) ... Setting up libqt5test5:amd64 (5.15.10+dfsg-7) ... Setting up libllvm17:amd64 (1:17.0.6-5) ... Setting up libxcomposite1:amd64 (1:0.4.5-1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libavahi-client3:amd64 (0.8-13+b1) ... Setting up libstdc++-13-dev:amd64 (13.2.0-16.1) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1+b1) ... Setting up libdrm-amdgpu1:amd64 (2.4.120-2) ... Setting up libhdf5-hl-100:amd64 (1.10.10+repack-3+b1) ... Setting up libtirpc3:amd64 (1.3.4+ds-1) ... Setting up libxcb-dri3-0:amd64 (1.15-1) ... Setting up libinput10:amd64 (1.25.0-1) ... Setting up gtk-update-icon-cache (3.24.41-1.1) ... Setting up libx11-xcb1:amd64 (2:1.8.7-1) ... Setting up fontconfig (2.15.0-1) ... Regenerating fonts cache... done. Setting up libboost1.83-dev:amd64 (1.83.0-2.1) ... Setting up libdrm-nouveau2:amd64 (2.4.120-2) ... Setting up libxdamage1:amd64 (1:1.1.6-1) ... Setting up libcbf1t64:amd64 (0.9.7+dfsg1-3.1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up libgbm1:amd64 (24.0.2-1) ... Setting up libdrm-radeon1:amd64 (2.4.120-2) ... Setting up libpango-1.0-0:amd64 (1.52.0+ds-1) ... Setting up libdrm-intel1:amd64 (2.4.120-2) ... Setting up libgl1-mesa-dri:amd64 (24.0.2-1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libcurl3-gnutls:amd64 (8.6.0-3) ... Setting up libwxbase3.2-1:amd64 (3.2.4+dfsg-3) ... Setting up libcairo2:amd64 (1.18.0-1+b1) ... Setting up libqt5network5:amd64 (5.15.10+dfsg-7) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up libqt5sql5:amd64 (5.15.10+dfsg-7) ... Setting up dbus-user-session (1.14.10-4) ... Setting up libqt5xml5:amd64 (5.15.10+dfsg-7) ... Setting up libegl-mesa0:amd64 (24.0.2-1) ... Setting up libexpat1-dev:amd64 (2.6.0-1) ... Setting up adwaita-icon-theme (46~beta-4) ... 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:amd64 (1:6.0.0-2) ... Setting up libnotify4:amd64 (0.8.3-1) ... Setting up libraqm0:amd64 (0.10.1-1+b1) ... Setting up libxinerama1:amd64 (2:1.1.4-3) ... Setting up libxrandr2:amd64 (2:1.5.2-2+b1) ... Setting up libcups2:amd64 (2.4.7-1+b1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg-3+b1) ... Setting up libnetcdf19:amd64 (1:4.9.2-3+b1) ... Setting up libnsl2:amd64 (1.3.0-3) ... Setting up libegl1:amd64 (1.7.0-1) ... Setting up libcairo-gobject2:amd64 (1.18.0-1+b1) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libpangoft2-1.0-0:amd64 (1.52.0+ds-1) ... Setting up libpangocairo-1.0-0:amd64 (1.52.0+ds-1) ... Setting up libcctbx0 (2023.12+ds2+~3.17.0+ds1-4) ... Setting up libxft2:amd64 (2.3.6-1+b1) ... Setting up libglx-mesa0:amd64 (24.0.2-1) ... Setting up libpython3.12-stdlib:amd64 (3.12.2-3) ... Setting up libxi6:amd64 (2:1.8.1-1) ... Setting up libglx0:amd64 (1.7.0-1) ... Setting up libxtst6:amd64 (2:1.2.3-1.1) ... Setting up libpython3.11-stdlib:amd64 (3.11.8-2) ... Setting up libtk8.6:amd64 (8.6.13-2+b1) ... Setting up python3.12 (3.12.2-3) ... Setting up libxcursor1:amd64 (1:1.2.1-1) ... Setting up libpython3.11t64:amd64 (3.11.8-2) ... Setting up dconf-service (0.40.0-4+b1) ... Setting up libatspi2.0-0:amd64 (2.50.0-1+b1) ... Setting up libatk-bridge2.0-0:amd64 (2.50.0-1+b1) ... Setting up libgl1:amd64 (1.7.0-1) ... Setting up libpython3.11-dev:amd64 (3.11.8-2) ... Setting up libglew2.2:amd64 (2.2.0-4+b1) ... Setting up libpython3-stdlib:amd64 (3.11.6-1) ... Setting up python3.11 (3.11.8-2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-7) ... Setting up libpython3-dev:amd64 (3.11.6-1) ... Setting up dconf-gsettings-backend:amd64 (0.40.0-4+b1) ... Setting up python3.11-dev (3.11.8-2) ... Setting up blt (2.5.3+dfsg-7) ... Setting up libqt5gui5:amd64 (5.15.10+dfsg-7) ... Setting up libqt5widgets5:amd64 (5.15.10+dfsg-7) ... Setting up python3 (3.11.6-1) ... Setting up python3-opengl (3.1.7+dfsg-1) ... /usr/lib/python3/dist-packages/OpenGL/GL/AMD/vertex_shader_tessellator.py:1: SyntaxWarning: invalid escape sequence '\ ' '''OpenGL extension AMD.vertex_shader_tessellator Setting up libqt5help5:amd64 (5.15.10-6) ... Setting up python3-tz (2024.1-2) ... Setting up python3-orderedset (2.0.3+ds1-2) ... Setting up python3-six (1.16.0-4) ... Setting up libqt5printsupport5:amd64 (5.15.10+dfsg-7) ... Setting up python3-pil:amd64 (10.2.0-1) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (23.2-1) ... Setting up python3-pyparsing (3.1.1-1) ... Setting up python3-certifi (2023.11.17-1) ... Setting up python3-brotli (1.1.0-2+b3) ... Setting up python3-cycler (0.11.0-1) ... Setting up python3-pycbf (0.9.7+dfsg1-3.1) ... Setting up python3-kiwisolver (1.4.4-1+b2) ... Setting up python3-idna (3.6-2) ... Setting up python3-urllib3 (1.26.18-2) ... Setting up python3-pyqt5.sip (12.13.0-1+b1) ... Setting up libqt5opengl5:amd64 (5.15.10+dfsg-7) ... Setting up python3-lxml:amd64 (5.1.0-1) ... Setting up python3-dateutil (2.8.2-3) ... Setting up python3-mpmath (1.2.1-2) ... Setting up python3-lib2to3 (3.11.5-1) ... Setting up python3-appdirs (1.4.4-4) ... Setting up python3-procrunner (2.3.3-1) ... Setting up libgtk-3-common (3.24.41-1.1) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.11.5-1) ... python3.12: can't get files for byte-compilation Setting up python3-sympy (1.12-7) ... Setting up python3-attr (23.2.0-2) ... Setting up libqt5designer5:amd64 (5.15.10-6) ... Setting up python3-lz4 (4.0.2+dfsg-1+b3) ... Setting up python3-charset-normalizer (3.3.2-1) ... Setting up libgtk-3-0:amd64 (3.24.41-1) ... Setting up python3-unicodedata2 (15.1.0+ds-1+b1) ... Setting up python3-tqdm (4.64.1-2) ... Setting up python3-tk:amd64 (3.11.5-1) ... Setting up python3-fs (2.4.16-3) ... Setting up python3-pint (0.19.2-1) ... Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-pil.imagetk:amd64 (10.2.0-1) ... Setting up python3-dev (3.11.6-1) ... Setting up python3-requests (2.31.0+dfsg-1) ... Setting up libboost-python1.83-dev (1.83.0-2.1) ... Setting up python3-numpy (1:1.24.2-2) ... Setting up python3-contourpy (1.0.7-1+b2) ... Setting up python3-pyqt5 (5.15.10+dfsg-1) ... Setting up python3-mrcfile (1.4.3-3) ... Setting up libwxgtk3.2-1:amd64 (3.2.4+dfsg-3) ... Setting up python3-pyqt5.qtopengl (5.15.10+dfsg-1) ... Setting up python3-scipy (1.11.4-6) ... Setting up libwxgtk-gl3.2-1:amd64 (3.2.4+dfsg-3) ... Setting up python3-wxgtk4.0 (4.2.1+dfsg-3) ... Setting up python3-h5py-serial (3.10.0-1) ... Setting up libboost-python-dev (1.83.0.2+b2) ... Setting up python3-h5py (3.10.0-1) ... Setting up python3-pymol (2.5.0+dfsg-1+b4) ... /usr/lib/python3/dist-packages/chempy/sdf.py:23: SyntaxWarning: invalid escape sequence '\s' getkee = re.compile("^>\s+<([^>]*)>") /usr/lib/python3/dist-packages/chempy/sdf.py:24: SyntaxWarning: invalid escape sequence '\s' gettag = re.compile("^>\s+<[^>]*>\s+\((.*)\)") /usr/lib/python3/dist-packages/pmg_tk/skins/normal/__init__.py:849: SyntaxWarning: invalid escape sequence '\.' g = re.search("(.*)(\..*)$", save_file) /usr/lib/python3/dist-packages/pmg_tk/skins/normal/__init__.py:889: SyntaxWarning: invalid escape sequence '\.' if re.search("\.pym*$|\.PYM*$",ofile): /usr/lib/python3/dist-packages/pymol/internal.py:252: SyntaxWarning: invalid escape sequence '\.' if re.search("[0-9]*\.png$",fname): # remove numbering, etc. /usr/lib/python3/dist-packages/pymol/internal.py:253: SyntaxWarning: invalid escape sequence '\.' fname = re.sub("[0-9]*\.png$","",fname) /usr/lib/python3/dist-packages/pymol/internal.py:254: SyntaxWarning: invalid escape sequence '\.' if re.search("[0-9]*\.ppm$",fname): /usr/lib/python3/dist-packages/pymol/internal.py:257: SyntaxWarning: invalid escape sequence '\.' fname = re.sub("[0-9]*\.ppm$","",fname) /usr/lib/python3/dist-packages/pymol/movie.py:818: SyntaxWarning: invalid escape sequence '\W' '''Return full path to executable or None. /usr/lib/python3/dist-packages/pymol/moving.py:733: SyntaxWarning: invalid escape sequence '\s' input = re.sub("\s"," ",specification) /usr/lib/python3/dist-packages/pymol/parser.py:48: SyntaxWarning: invalid escape sequence '\[' remove_lists_re = re.compile("\[[^\]]*\]") /usr/lib/python3/dist-packages/pymol/parser.py:408: SyntaxWarning: invalid escape sequence '\.' if re.search("\.py$|\.pym$",path) is not None: /usr/lib/python3/dist-packages/pymol/plugins/installation.py:23: SyntaxWarning: invalid escape sequence '\p' ''' /usr/lib/python3/dist-packages/pymol/viewing.py:899: SyntaxWarning: invalid escape sequence '\.' re_pat = re.compile("[0-9]+\.") /usr/lib/python3/dist-packages/pymol/viewing.py:912: SyntaxWarning: invalid escape sequence '\.' new_file = re.sub("\.pse$",".psw",new_file,re.I) /usr/lib/python3/dist-packages/pymol/viewing.py:914: SyntaxWarning: invalid escape sequence '\.' new_file = re.sub("\.psw$",".pse",new_file,re.I) /usr/lib/python3/dist-packages/pymol/wizard/pseudoatom.py:13: SyntaxWarning: invalid escape sequence '\8' self.prefix = 'Label text: \888' Setting up python3-nxmx (0.0.3-2) ... Setting up libcctbx-dev (2023.12+ds2+~3.17.0+ds1-4) ... Setting up python3-fonttools (4.46.0-1) ... Setting up python3-ufolib2 (0.16.0+dfsg1-1) ... Setting up python3-matplotlib (3.6.3-1+b2) ... Setting up python3-cctbx (2023.12+ds2+~3.17.0+ds1-4) ... /usr/lib/python3/dist-packages/cctbx/command_line/find_reticular_twin_laws.py:37: SyntaxWarning: invalid escape sequence '\%' print(""" /usr/lib/python3/dist-packages/gltbx/util.py:61: SyntaxWarning: invalid escape sequence '\d' vers_pat = re.compile("^((\d+)\.(\d+))(?:\.(\d+))?(?: (.*))?$") /usr/lib/python3/dist-packages/iotbx/command_line/explore_metric_symmetry.py:339: SyntaxWarning: invalid escape sequence '\ ' print(" /%4i %4i %4i \ "%(mat[0][0],mat[0][1],mat[0][2]), file=log) /usr/lib/python3/dist-packages/iotbx/command_line/explore_metric_symmetry.py:341: SyntaxWarning: invalid escape sequence '\%' print(" \%4i %4i %4i / "%(mat[2][0],mat[2][1],mat[2][2]), file=log) /usr/lib/python3/dist-packages/iotbx/logfiles.py:19: SyntaxWarning: invalid escape sequence '\%' return float(re.sub("\%$", "", value)) /usr/lib/python3/dist-packages/iotbx/logfiles.py:474: SyntaxWarning: invalid escape sequence '\d' elif re.match("^\d", line): /usr/lib/python3/dist-packages/iotbx/pdb/utils.py:7: SyntaxWarning: invalid escape sequence '\{' """ Iterator to generate strings of length n_chars, using upper-case, /usr/lib/python3/dist-packages/iotbx/pdb/utils.py:45: SyntaxWarning: invalid escape sequence '\/' special_characters = """[]_,.;:"&<>()\/\{}'`~!@#$%*|+-""" /usr/lib/python3/dist-packages/iotbx/regression/ncs/tst_ncs_groups_preprocessing.py:409: SyntaxWarning: invalid escape sequence '\P' test_ncs_spec = '''\ /usr/lib/python3/dist-packages/libtbx/auto_build/bootstrap.py:455: SyntaxWarning: invalid escape sequence '\s' if re.match('remote\s*=', line.strip()): /usr/lib/python3/dist-packages/libtbx/auto_build/bootstrap.py:457: SyntaxWarning: invalid escape sequence '\s' if re.match('rebase\s*=', line.strip()): /usr/lib/python3/dist-packages/libtbx/auto_build/install_base_packages.py:840: SyntaxWarning: invalid escape sequence '\$' configure_args.append("LDFLAGS=-Wl,-rpath=\$$ORIGIN/../lib") /usr/lib/python3/dist-packages/libtbx/fastentrypoints.py:43: SyntaxWarning: invalid escape sequence '\.' TEMPLATE = '''\ /usr/lib/python3/dist-packages/libtbx/fastentrypoints.py:92: SyntaxWarning: invalid escape sequence '\.' filename = re.sub('\.pyc$', '.py', __file__) /usr/lib/python3/dist-packages/libtbx/file_clutter.py:12: SyntaxWarning: invalid escape sequence '\w' '^ from [ ]+ __future__ [ ]+ import [ \w,]+ division', re.VERBOSE) /usr/lib/python3/dist-packages/libtbx/file_clutter.py:14: SyntaxWarning: invalid escape sequence '\w' '^ from [ ]+ __future__ [ ]+ import [ \w,]+ absolute_import', re.VERBOSE) /usr/lib/python3/dist-packages/libtbx/file_clutter.py:16: SyntaxWarning: invalid escape sequence '\w' '^ from [ ]+ __future__ [ ]+ import [ \w,]+ print_function', re.VERBOSE) /usr/lib/python3/dist-packages/libtbx/queuing_system_utils/processing/polling.py:282: SyntaxWarning: invalid escape sequence '\?' pattern = "^.*?(?=<\?xml)", /usr/lib/python3/dist-packages/mmtbx/command_line/show_r_factors_by_shell.py:106: SyntaxWarning: invalid escape sequence '\(' first_label_non_anom = re.sub("\(.*", "", labels[0]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:777: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', list[resid_count]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:779: SyntaxWarning: invalid escape sequence '\w' n=re.search('\w', list[resid_count + 1]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:816: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', list[2 * a]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:823: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', list[2 * a]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1191: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', MASTER_Basepairs_summary[i][j][2]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1194: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', MASTER_Basepairs_summary[i][j][4]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1499: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', MASTER_Basepairs[i][j][0]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1501: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', MASTER_Basepairs[i][j][3]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1503: SyntaxWarning: invalid escape sequence '\S' m=re.search('\S+', MASTER_Basepairs[i][j][2]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1505: SyntaxWarning: invalid escape sequence '\S' m=re.search('\S+', MASTER_Basepairs[i][j][5]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1823: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', LIST[r][s][2]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1825: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', LIST[r][s][4]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1879: SyntaxWarning: invalid escape sequence '\/' ma=re.compile('\/+') /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1988: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', MASTER_Basepairs_summary_line[2]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:1991: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', MASTER_Basepairs_summary_line[4]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:2318: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', MASTER_Basepairs_summary[i][j][2]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:2324: SyntaxWarning: invalid escape sequence '\d' m=re.search('\d+', MASTER_Basepairs_summary[i][j][2]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:2892: SyntaxWarning: invalid escape sequence '\S' m=re.search('\S+', new_list_end[b][0]) /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:2979: SyntaxWarning: invalid escape sequence '\d' search = '\d+' /usr/lib/python3/dist-packages/mmtbx/pdb_distances.py:2981: SyntaxWarning: invalid escape sequence '\w' search = '\w+' /usr/lib/python3/dist-packages/prime/postrefine/mod_gui_frames.py:750: SyntaxWarning: invalid escape sequence '\A' self.bmult_axes.set_xlabel("Resolution ($\AA$)") /usr/lib/python3/dist-packages/scitbx/math/fliege_mayer_900_ylm.py:1: SyntaxWarning: invalid escape sequence '\i' """ /usr/lib/python3/dist-packages/wxtbx/info_panels.py:208: SyntaxWarning: invalid escape sequence '\s' str_value = re.sub("\s*\*\*\*", "", str_value) /usr/lib/python3/dist-packages/wxtbx/info_panels.py:418: SyntaxWarning: invalid escape sequence '\s' str_value = re.sub("\s*\*\*\*", "", str_value) /usr/lib/python3/dist-packages/wxtbx/phil_controls/choice.py:18: SyntaxWarning: invalid escape sequence '\*' choices = [ re.sub("\*", "", choice) for choice in choices ] /usr/lib/python3/dist-packages/xfel/command_line/cxi_stream_to_pickle.py:23: SyntaxWarning: invalid escape sequence '\s' re_energy = re.compile("photon_energy_eV\s=\s([0-9]+\.[0-9]+)") /usr/lib/python3/dist-packages/xfel/command_line/cxi_stream_to_pickle.py:24: SyntaxWarning: invalid escape sequence '\s' re_uc = re.compile("""Cell\sparameters\s /usr/lib/python3/dist-packages/xfel/command_line/cxi_stream_to_pickle.py:33: SyntaxWarning: invalid escape sequence '\s' re_miller = re.compile("""\s*(-?[0-9]{1,3}) /usr/lib/python3/dist-packages/xfel/command_line/cxi_stream_to_pickle.py:41: SyntaxWarning: invalid escape sequence '\s' re_lattice_type = re.compile("lattice_type\s=\s([a-zA-Z]+)") /usr/lib/python3/dist-packages/xfel/command_line/cxi_stream_to_pickle.py:42: SyntaxWarning: invalid escape sequence '\s' re_centering = re.compile("centering\s=\s([A-Z])") /usr/lib/python3/dist-packages/xfel/command_line/cxi_stream_to_pickle.py:45: SyntaxWarning: invalid escape sequence '\s' re_Astar = re.compile("""astar\s=\s*(-?\+?[0-9]+\.[0-9]+) /usr/lib/python3/dist-packages/xfel/command_line/cxi_stream_to_pickle.py:48: SyntaxWarning: invalid escape sequence '\s' re_Bstar = re.compile("""bstar\s=\s*(-?\+?[0-9]+\.[0-9]+) /usr/lib/python3/dist-packages/xfel/command_line/cxi_stream_to_pickle.py:51: SyntaxWarning: invalid escape sequence '\s' re_Cstar = re.compile("""cstar\s=\s*(-?\+?[0-9]+\.[0-9]+) /usr/lib/python3/dist-packages/xfel/command_line/detector_residuals.py:1124: SyntaxWarning: invalid escape sequence '\D' plt.title("2d histogram of $\Delta$ %s vs azimuthal angle"%caption) /usr/lib/python3/dist-packages/xfel/command_line/detector_residuals.py:1126: SyntaxWarning: invalid escape sequence '\D' plt.ylabel("$\Delta$ %s ($\mu$m)"%caption) /usr/lib/python3/dist-packages/xfel/command_line/detector_residuals.py:1266: SyntaxWarning: invalid escape sequence '\A' plt.title(u"%d: Ewald offset ($\AA^{-1}$) vs $2\\theta$ on %d spots"%(expt_id, len(two_thetas))) /usr/lib/python3/dist-packages/xfel/command_line/detector_residuals.py:1267: SyntaxWarning: invalid escape sequence '\c' plt.xlabel(u"$2\\theta (\circ)$") /usr/lib/python3/dist-packages/xfel/command_line/detector_residuals.py:1268: SyntaxWarning: invalid escape sequence '\A' plt.ylabel(u"Ewald offset ($\AA^{-1}$)") /usr/lib/python3/dist-packages/xfel/command_line/detector_residuals.py:1294: SyntaxWarning: invalid escape sequence '\s' plt.title(u"Binned $I/\sigma_I$ vs. Ewald offset") /usr/lib/python3/dist-packages/xfel/command_line/detector_residuals.py:1295: SyntaxWarning: invalid escape sequence '\A' plt.xlabel(u"Ewald offset ($\AA^{-1}$)") /usr/lib/python3/dist-packages/xfel/command_line/detector_residuals.py:1296: SyntaxWarning: invalid escape sequence '\s' plt.ylabel(u"Median $I/\sigma_I$") /usr/lib/python3/dist-packages/xfel/command_line/experiment_residuals.py:203: SyntaxWarning: invalid escape sequence '\D' cbar.ax.set_title("$\Delta \psi$") /usr/lib/python3/dist-packages/xfel/cxi/cspad_ana/mod_filter.py:52: SyntaxWarning: invalid escape sequence '\d' p_old = re.compile("\d{4}-\d{2}-\d{2}T\d{2}:\d{2}Z\d{2}\.\d{3}") /usr/lib/python3/dist-packages/xfel/cxi/cspad_ana/mod_filter.py:53: SyntaxWarning: invalid escape sequence '\d' p_new = re.compile("\d{17}") /usr/lib/python3/dist-packages/xfel/cxi/cxi_cc.py:132: SyntaxWarning: invalid escape sequence '\d' """Get the R1 factor according to this formula /usr/lib/python3/dist-packages/xfel/merging/application/statistics/intensity_resolution_statistics_cxi.py:350: SyntaxWarning: invalid escape sequence '\d' """Get the R1 factor according to this formula /usr/lib/python3/dist-packages/xfel/metrology/flatfile.py:1022: SyntaxWarning: invalid escape sequence '\s' re.compile('^\s*(#.*)?$') /usr/lib/python3/dist-packages/xfel/metrology/flatfile.py:1024: SyntaxWarning: invalid escape sequence '\s' re.compile('^\s*[Qq][Uu][Aa][Dd]\s+\d+\s*(#.*)?$') /usr/lib/python3/dist-packages/xfel/metrology/flatfile.py:1026: SyntaxWarning: invalid escape sequence '\s' re.compile('^\s*[Ss][Ee][Nn][Ss][Oo][Rr]\s+[Xx]\s+[Yy]\s+[Zz]\s*(#.*)?$') /usr/lib/python3/dist-packages/xfel/metrology/flatfile.py:1028: SyntaxWarning: invalid escape sequence '\s' re.compile('^\s*\d+\s+[+-]?\d+\s+[+-]?\d+\s+[+-]?\d+\s*(#.*)?$') /usr/lib/python3/dist-packages/xfel/ui/components/xfel_gui_plotter.py:393: SyntaxWarning: invalid escape sequence '\A' AA = "a-edge (%.2f +/- %.2f $\AA$)" % (flex.mean(a), /usr/lib/python3/dist-packages/xfel/ui/components/xfel_gui_plotter.py:395: SyntaxWarning: invalid escape sequence '\A' BB = "b-edge (%.2f +/- %.2f $\AA$)" % (flex.mean(b), /usr/lib/python3/dist-packages/xfel/ui/components/xfel_gui_plotter.py:397: SyntaxWarning: invalid escape sequence '\A' CC = "c-edge (%.2f +/- %.2f $\AA$)" % (flex.mean(c), /usr/lib/python3/dist-packages/xfel/ui/db/merging_log_scraper.py:106: SyntaxWarning: invalid escape sequence '\A' ax1.set_xlabel(u'Resolution ${\AA}$') /usr/lib/python3/dist-packages/xfel/ui/db/merging_log_scraper.py:189: SyntaxWarning: invalid escape sequence '\A' ax2.set_ylabel(u"Resolution ($\AA$") Processing triggers for libc-bin (2.37-15.1) ... Processing triggers for systemd (255.4-1) ... 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. 2m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', '-y', 'install', 'python3-cctbx=2023.12+ds2+~3.17.0+ds1-4'] 2m32.4s INFO: Running scripts post_install 2m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_install_exceptions'] 2m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_install_exceptions'] 2m32.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_install_log_alternatives'] 2m32.4s DUMP: Removing 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' LOG-ALTERNATIVES: dpkg=python3: piuparts=python3-cctbx=2023.12+ds2+~3.17.0+ds1-4: /usr/bin/update-alternatives --auto /usr/bin/python3 LOG-ALTERNATIVES: dpkg=libblas3: piuparts=python3-cctbx=2023.12+ds2+~3.17.0+ds1-4: /usr/bin/update-alternatives --install /usr/lib/x86_64-linux-gnu/libblas.so.3 libblas.so.3-x86_64-linux-gnu /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 10 LOG-ALTERNATIVES: dpkg=procps: piuparts=python3-cctbx=2023.12+ds2+~3.17.0+ds1-4: /usr/bin/update-alternatives --remove w /usr/bin/w.procps LOG-ALTERNATIVES: dpkg=liblapack3: piuparts=python3-cctbx=2023.12+ds2+~3.17.0+ds1-4: /usr/bin/update-alternatives --install /usr/lib/x86_64-linux-gnu/liblapack.so.3 liblapack.so.3-x86_64-linux-gnu /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 10 LOG-ALTERNATIVES: dpkg=adwaita-icon-theme: piuparts=python3-cctbx=2023.12+ds2+~3.17.0+ds1-4: /usr/bin/update-alternatives --install /usr/share/icons/default/index.theme x-cursor-theme /usr/share/icons/Adwaita/cursor.theme 90 2m32.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_install_log_alternatives'] 2m32.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 2m34.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 2m41.0s ERROR: WARN: Broken symlinks: /etc/vconsole.conf -> default/keyboard /etc/default/locale -> ../locale.conf /usr/lib/x86_64-linux-gnu/qt-default/qtchooser/default.conf -> ../../../../share/qtchooser/qt5-x86_64-linux-gnu.conf (libqt5core5a:amd64) /usr/share/doc/python3-mrcfile/html/_static/_sphinx_javascript_frameworks_compat.js -> ../../../../javascript/sphinxdoc/1.0/_sphinx_javascript_frameworks_compat.js (python3-mrcfile) 2m41.1s INFO: /bin converted to /usr/bin by /usr merge 2m41.1s INFO: /lib converted to /usr/lib by /usr merge 2m41.1s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 2m41.1s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 2m41.1s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 2m41.1s INFO: /lib64 converted to /usr/lib64 by /usr merge 2m41.1s INFO: /sbin converted to /usr/sbin by /usr merge 2m43.8s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpddj305og', '-ac', '--ignore-obsolete'] 2m52.7s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpddj305og', '-ac', '--ignore-obsolete'] 2m52.7s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m52.7s DUMP: 0.15.6 2m52.7s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m52.7s INFO: Running adequate version 0.15.6 now. 2m52.7s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'python3-cctbx'] 2m57.9s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'python3-cctbx'] 2m57.9s INFO: Running scripts pre_remove 2m57.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m58.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m58.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m58.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m58.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 3m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 3m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 3m16.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 3m16.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 3m16.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 3m16.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_exceptions'] 3m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/pre_remove_exceptions'] 3m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 3m16.2s DUMP: install ok installed adduser adduser 3.137 install ok installed adwaita-icon-theme adwaita-icon-theme 46~beta-4 install ok installed apt apt 2.7.13+b1 install ok installed at-spi2-common at-spi2-common 2.51.90-1 install ok installed base-files base-files 13 install ok installed base-passwd base-passwd 3.6.3 install ok installed bash bash 5.2.21-2 install ok installed blt blt 2.5.3+dfsg-7 install ok installed bsdutils bsdutils 1:2.39.3-6.1 install ok installed ca-certificates ca-certificates 20240203 install ok installed coreutils coreutils 9.4-3+b1 install ok installed dash dash 0.5.12-6 install ok installed dbus dbus 1.14.10-4 install ok installed dbus-bin dbus-bin 1.14.10-4 install ok installed dbus-daemon dbus-daemon 1.14.10-4 install ok installed dbus-session-bus-common dbus-session-bus-common 1.14.10-4 install ok installed dbus-system-bus-common dbus-system-bus-common 1.14.10-4 install ok installed dbus-user-session dbus-user-session 1.14.10-4 install ok installed dconf-gsettings-backend:amd64 dconf-gsettings-backend 0.40.0-4+b1 install ok installed dconf-service dconf-service 0.40.0-4+b1 install ok installed debconf debconf 1.5.86 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.16 install ok installed diffutils diffutils 1:3.10-1 install ok installed dmsetup dmsetup 2:1.02.196-1 install ok installed dpkg dpkg 1.22.5 install ok installed e2fsprogs e2fsprogs 1.47.0-2.3 install ok installed findutils findutils 4.9.0-5 install ok installed fontconfig fontconfig 2.15.0-1 install ok installed fontconfig-config fontconfig-config 2.15.0-1 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-8 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-8 install ok installed fonts-font-awesome fonts-font-awesome 5.0.10+really4.7.0~dfsg-4.1 install ok installed fonts-lato fonts-lato 2.015-1 install ok installed fonts-lyx fonts-lyx 2.4.0~RC3-1 install ok installed gcc-13-base:amd64 gcc-13-base 13.2.0-16.1 install ok installed gcc-14-base:amd64 gcc-14-base 14-20240221-2.1 install ok installed gpgv gpgv 2.2.40-1.1+b1 install ok installed grep grep 3.11-4 install ok installed gtk-update-icon-cache gtk-update-icon-cache 3.24.41-1.1 install ok installed gzip gzip 1.12-1 install ok installed hicolor-icon-theme hicolor-icon-theme 0.17-2 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.66 install ok installed libacl1:amd64 libacl1 2.3.2-1 install ok installed libaec0:amd64 libaec0 1.1.2-1 install ok installed libann-cctbx-dev libann-cctbx-dev 1.1.2+doc-9+b1 install ok installed libann-cctbx0 libann-cctbx0 1.1.2+doc-9+b1 install ok installed libantlr3c-3.4-0:amd64 libantlr3c-3.4-0 3.4+dfsg-4 install ok installed libapparmor1:amd64 libapparmor1 3.0.12-1+b2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.7.13+b1 install ok installed libargon2-1:amd64 libargon2-1 0~20190702+dfsg-4+b1 install ok installed libasan8:amd64 libasan8 14-20240221-2.1 install ok installed libatk-bridge2.0-0:amd64 libatk-bridge2.0-0 2.50.0-1+b1 install ok installed libatk1.0-0:amd64 libatk1.0-0 2.50.0-1+b1 install ok installed libatomic1:amd64 libatomic1 14-20240221-2.1 install ok installed libatspi2.0-0:amd64 libatspi2.0-0 2.50.0-1+b1 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:3.1.2-2.1 install ok installed libaudit1:amd64 libaudit1 1:3.1.2-2.1 install ok installed libavahi-client3:amd64 libavahi-client3 0.8-13+b1 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.8-13+b1 install ok installed libavahi-common3:amd64 libavahi-common3 0.8-13+b1 install ok installed libblas3:amd64 libblas3 3.12.0-3 install ok installed libblkid1:amd64 libblkid1 2.39.3-6.1 install ok installed libboost-numpy1.83.0 libboost-numpy1.83.0 1.83.0-2.1 install ok installed libboost-python-dev libboost-python-dev 1.83.0.2+b2 install ok installed libboost-python1.83-dev libboost-python1.83-dev 1.83.0-2.1 install ok installed libboost-python1.83.0 libboost-python1.83.0 1.83.0-2.1 install ok installed libboost-thread1.83.0:amd64 libboost-thread1.83.0 1.83.0-2.1 install ok installed libboost1.83-dev:amd64 libboost1.83-dev 1.83.0-2.1 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b3 install ok installed libbsd0:amd64 libbsd0 0.12.1-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b2 install ok installed libc-bin libc-bin 2.37-15.1 install ok installed libc-dev-bin libc-dev-bin 2.37-15.1 install ok installed libc6:amd64 libc6 2.37-15.1 install ok installed libc6-dev:amd64 libc6-dev 2.37-15.1 install ok installed libcairo-gobject2:amd64 libcairo-gobject2 1.18.0-1+b1 install ok installed libcairo2:amd64 libcairo2 1.18.0-1+b1 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.4-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcbf1t64:amd64 libcbf1t64 0.9.7+dfsg1-3.1 install ok installed libccp4-data libccp4-data 8.0.0-2 install ok installed libccp4-dev:amd64 libccp4-dev 8.0.0-2 install ok installed libccp4c0:amd64 libccp4c0 8.0.0-2 install ok installed libccp4f0:amd64 libccp4f0 8.0.0-2 install ok installed libcctbx-dev libcctbx-dev 2023.12+ds2+~3.17.0+ds1-4 install ok installed libcctbx0 libcctbx0 2023.12+ds2+~3.17.0+ds1-4 install ok installed libcloudproviders0:amd64 libcloudproviders0 0.3.5-1 install ok installed libcolord2:amd64 libcolord2 1.4.7-1 install ok installed libcom-err2t64:amd64 libcom-err2t64 1.47.0-2.3 install ok installed libcrypt-dev:amd64 libcrypt-dev 1:4.4.36-4 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-4 install ok installed libcryptsetup12:amd64 libcryptsetup12 2:2.7.0-1 install ok installed libcups2:amd64 libcups2 2.4.7-1+b1 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 8.6.0-3 install ok installed libcurl4:amd64 libcurl4 8.6.0-3 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-3 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-5 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.14.10-4 install ok installed libdconf1:amd64 libdconf1 0.40.0-4+b1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.271+b1 install ok installed libdeflate0:amd64 libdeflate0 1.19-1 install ok installed libdevmapper1.02.1:amd64 libdevmapper1.02.1 2:1.02.196-1 install ok installed libdouble-conversion3:amd64 libdouble-conversion3 3.3.0-1+b1 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.120-2 install ok installed libdrm-common libdrm-common 2.4.120-2 install ok installed libdrm-intel1:amd64 libdrm-intel1 2.4.120-2 install ok installed libdrm-nouveau2:amd64 libdrm-nouveau2 2.4.120-2 install ok installed libdrm-radeon1:amd64 libdrm-radeon1 2.4.120-2 install ok installed libdrm2:amd64 libdrm2 2.4.120-2 install ok installed libedit2:amd64 libedit2 3.1-20230828-1 install ok installed libegl-mesa0:amd64 libegl-mesa0 24.0.2-1 install ok installed libegl1:amd64 libegl1 1.7.0-1 install ok installed libelf1t64:amd64 libelf1t64 0.190-1.1 install ok installed libepoxy0:amd64 libepoxy0 1.5.10-1+b2 install ok installed libevdev2:amd64 libevdev2 1.13.1+dfsg-1 install ok installed libexpat1:amd64 libexpat1 2.6.0-1 install ok installed libexpat1-dev:amd64 libexpat1-dev 2.6.0-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.0-2.3 install ok installed libfdisk1:amd64 libfdisk1 2.39.3-6.1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-1 install ok installed libfreetype6:amd64 libfreetype6 2.13.2+dfsg-1+b1 install ok installed libfribidi0:amd64 libfribidi0 1.0.13-3+b1 install ok installed libgbm1:amd64 libgbm1 24.0.2-1 install ok installed libgcc-13-dev:amd64 libgcc-13-dev 13.2.0-16.1 install ok installed libgcc-s1:amd64 libgcc-s1 14-20240221-2.1 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.3-2 install ok installed libgdk-pixbuf-2.0-0:amd64 libgdk-pixbuf-2.0-0 2.42.10+dfsg-3+b1 install ok installed libgdk-pixbuf2.0-common libgdk-pixbuf2.0-common 2.42.10+dfsg-3 install ok installed libgfortran5:amd64 libgfortran5 14-20240221-2.1 install ok installed libgl1:amd64 libgl1 1.7.0-1 install ok installed libgl1-mesa-dri:amd64 libgl1-mesa-dri 24.0.2-1 install ok installed libglapi-mesa:amd64 libglapi-mesa 24.0.2-1 install ok installed libglew2.2:amd64 libglew2.2 2.2.0-4+b1 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.78.4-2.1 install ok installed libglu1-mesa:amd64 libglu1-mesa 9.0.2-1.1 install ok installed libglvnd0:amd64 libglvnd0 1.7.0-1 install ok installed libglx-mesa0:amd64 libglx-mesa0 24.0.2-1 install ok installed libglx0:amd64 libglx0 1.7.0-1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.3-1.1 install ok installed libgomp1:amd64 libgomp1 14-20240221-2.1 install ok installed libgpg-error0:amd64 libgpg-error0 1.47-3 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-5+b1 install ok installed libgtk-3-0:amd64 libgtk-3-0 3.24.41-1 install ok installed libgtk-3-common libgtk-3-common 3.24.41-1.1 install ok installed libgudev-1.0-0:amd64 libgudev-1.0-0 238-3 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 8.3.0-2 install ok installed libhdf5-103-1t64:amd64 libhdf5-103-1t64 1.10.10+repack-3.1 install ok installed libhdf5-hl-100:amd64 libhdf5-hl-100 1.10.10+repack-3+b1 install ok installed libhogweed6:amd64 libhogweed6 3.9.1-2+b1 install ok installed libhwasan0:amd64 libhwasan0 14-20240221-2.1 install ok installed libice6:amd64 libice6 2:1.0.10-1 install ok installed libicu72:amd64 libicu72 72.1-4+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed libimagequant0:amd64 libimagequant0 2.18.0-1 install ok installed libinput-bin libinput-bin 1.25.0-1 install ok installed libinput10:amd64 libinput10 1.25.0-1 install ok installed libitm1:amd64 libitm1 14-20240221-2.1 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b1 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-2+b2 install ok installed libjs-jquery libjs-jquery 3.6.1+dfsg+~3.5.14-1 install ok installed libjs-jquery-ui libjs-jquery-ui 1.13.2+dfsg-1 install ok installed libjs-sphinxdoc libjs-sphinxdoc 7.2.6-4 install ok installed libjs-underscore libjs-underscore 1.13.4~dfsg+~1.11.4-3 install ok installed libjson-c5:amd64 libjson-c5 0.17-1+b1 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-5+b1 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-3 install ok installed libkmod2:amd64 libkmod2 31+20240202-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-5+b1 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-5+b1 install ok installed liblapack3:amd64 liblapack3 3.12.0-3 install ok installed liblbfgsb0:amd64 liblbfgsb0 3.0+dfsg.4-1+b1 install ok installed liblcms2-2:amd64 liblcms2-2 2.14-2+b1 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.13+dfsg-5+b3 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-4+b1 install ok installed libllvm17:amd64 libllvm17 1:17.0.6-5 install ok installed liblsan0:amd64 liblsan0 14-20240221-2.1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1+b2 install ok installed liblzf1:amd64 liblzf1 3.6-4 install ok installed liblzma5:amd64 liblzma5 5.6.0-0.2 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmd4c0:amd64 libmd4c0 0.4.8-1+b1 install ok installed libmmdb2-0:amd64 libmmdb2-0 2.0.22-1+b1 install ok installed libmount1:amd64 libmount1 2.39.3-6.1 install ok installed libmtdev1:amd64 libmtdev1 1.1.6-1+b1 install ok installed libncursesw6:amd64 libncursesw6 6.4+20240113-1 install ok installed libnetcdf19:amd64 libnetcdf19 1:4.9.2-3+b1 install ok installed libnettle8:amd64 libnettle8 3.9.1-2+b1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.59.0-1 install ok installed libnotify4:amd64 libnotify4 0.8.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-3 install ok installed libopengl0:amd64 libopengl0 1.7.0-1 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.0-2+b2 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.3-4 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-6 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-6 install ok installed libpam-runtime libpam-runtime 1.5.3-6 install ok installed libpam-systemd:amd64 libpam-systemd 255.4-1 install ok installed libpam0t64:amd64 libpam0t64 1.5.3-4 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.52.0+ds-1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.52.0+ds-1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.52.0+ds-1 install ok installed libpciaccess0:amd64 libpciaccess0 0.17-3 install ok installed libpcre2-16-0:amd64 libpcre2-16-0 10.42-4+b1 install ok installed libpcre2-32-0:amd64 libpcre2-32-0 10.42-4+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1+b1 install ok installed libpng16-16:amd64 libpng16-16 1.6.43-1 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-4 install ok installed libpsl5:amd64 libpsl5 0.21.2-1+b1 install ok installed libpython3-dev:amd64 libpython3-dev 3.11.6-1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.11.6-1 install ok installed libpython3.11-dev:amd64 libpython3.11-dev 3.11.8-2 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.8-2 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.8-2 install ok installed libpython3.11t64:amd64 libpython3.11t64 3.11.8-2 install ok installed libpython3.12-minimal:amd64 libpython3.12-minimal 3.12.2-3 install ok installed libpython3.12-stdlib:amd64 libpython3.12-stdlib 3.12.2-3 install ok installed libqhull-r8.0:amd64 libqhull-r8.0 2020.2-6+b1 install ok installed libqt5core5a:amd64 libqt5core5a 5.15.10+dfsg-7 install ok installed libqt5dbus5:amd64 libqt5dbus5 5.15.10+dfsg-7 install ok installed libqt5designer5:amd64 libqt5designer5 5.15.10-6 install ok installed libqt5gui5:amd64 libqt5gui5 5.15.10+dfsg-7 install ok installed libqt5help5:amd64 libqt5help5 5.15.10-6 install ok installed libqt5network5:amd64 libqt5network5 5.15.10+dfsg-7 install ok installed libqt5opengl5:amd64 libqt5opengl5 5.15.10+dfsg-7 install ok installed libqt5printsupport5:amd64 libqt5printsupport5 5.15.10+dfsg-7 install ok installed libqt5sql5:amd64 libqt5sql5 5.15.10+dfsg-7 install ok installed libqt5test5:amd64 libqt5test5 5.15.10+dfsg-7 install ok installed libqt5widgets5:amd64 libqt5widgets5 5.15.10+dfsg-7 install ok installed libqt5xml5:amd64 libqt5xml5 5.15.10+dfsg-7 install ok installed libquadmath0:amd64 libquadmath0 14-20240221-2.1 install ok installed libraqm0:amd64 libraqm0 0.10.1-1+b1 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-3.1 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-4+b1 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-4+b1 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1 install ok installed libselinux1:amd64 libselinux1 3.5-2 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1+b2 install ok installed libsensors-config libsensors-config 1:3.6.0-9 install ok installed libsensors5:amd64 libsensors5 1:3.6.0-9 install ok installed libsepol2:amd64 libsepol2 3.5-2 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.3.2-0.4 install ok installed libsm6:amd64 libsm6 2:1.2.3-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.39.3-6.1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.45.1-1 install ok installed libss2t64:amd64 libss2t64 1.47.0-2.3 install ok installed libssh2-1:amd64 libssh2-1 1.11.0-4 install ok installed libssl3t64:amd64 libssl3t64 3.1.5-1.1 install ok installed libssm2:amd64 libssm2 1.4.0-2+b1 install ok installed libstdc++-13-dev:amd64 libstdc++-13-dev 13.2.0-16.1 install ok installed libstdc++6:amd64 libstdc++6 14-20240221-2.1 install ok installed libsystemd-shared:amd64 libsystemd-shared 255.4-1 install ok installed libsystemd0:amd64 libsystemd0 255.4-1 install ok installed libsz2:amd64 libsz2 1.1.2-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.13+dfsg-2+b1 install ok installed libthai-data libthai-data 0.1.29-2 install ok installed libthai0:amd64 libthai0 0.1.29-2 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-4 install ok installed libtinfo6:amd64 libtinfo6 6.4+20240113-1 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1.1 install ok installed libtirpc3:amd64 libtirpc3 1.3.4+ds-1 install ok installed libtk8.6:amd64 libtk8.6 8.6.13-2+b1 install ok installed libtsan2:amd64 libtsan2 14-20240221-2.1 install ok installed libubsan1:amd64 libubsan1 14-20240221-2.1 install ok installed libudev1:amd64 libudev1 255.4-1 install ok installed libunistring5:amd64 libunistring5 1.1-2 install ok installed libuuid1t64:amd64 libuuid1t64 2.39.3-6.1 install ok installed libvulkan1:amd64 libvulkan1 1.3.275.0-1 install ok installed libwacom-common libwacom-common 2.10.0-1 install ok installed libwacom9:amd64 libwacom9 2.10.0-1 install ok installed libwayland-client0:amd64 libwayland-client0 1.22.0-2.1+b1 install ok installed libwayland-cursor0:amd64 libwayland-cursor0 1.22.0-2.1+b1 install ok installed libwayland-egl1:amd64 libwayland-egl1 1.22.0-2.1+b1 install ok installed libwayland-server0:amd64 libwayland-server0 1.22.0-2.1+b1 install ok installed libwebp7:amd64 libwebp7 1.3.2-0.4 install ok installed libwebpdemux2:amd64 libwebpdemux2 1.3.2-0.4 install ok installed libwebpmux3:amd64 libwebpmux3 1.3.2-0.4 install ok installed libwxbase3.2-1:amd64 libwxbase3.2-1 3.2.4+dfsg-3 install ok installed libwxgtk-gl3.2-1:amd64 libwxgtk-gl3.2-1 3.2.4+dfsg-3 install ok installed libwxgtk3.2-1:amd64 libwxgtk3.2-1 3.2.4+dfsg-3 install ok installed libx11-6:amd64 libx11-6 2:1.8.7-1 install ok installed libx11-data libx11-data 2:1.8.7-1 install ok installed libx11-xcb1:amd64 libx11-xcb1 2:1.8.7-1 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxcb-dri2-0:amd64 libxcb-dri2-0 1.15-1 install ok installed libxcb-dri3-0:amd64 libxcb-dri3-0 1.15-1 install ok installed libxcb-glx0:amd64 libxcb-glx0 1.15-1 install ok installed libxcb-icccm4:amd64 libxcb-icccm4 0.4.1-1.1+b1 install ok installed libxcb-image0:amd64 libxcb-image0 0.4.0-2+b1 install ok installed libxcb-keysyms1:amd64 libxcb-keysyms1 0.4.0-1+b2 install ok installed libxcb-present0:amd64 libxcb-present0 1.15-1 install ok installed libxcb-randr0:amd64 libxcb-randr0 1.15-1 install ok installed libxcb-render-util0:amd64 libxcb-render-util0 0.3.9-1+b1 install ok installed libxcb-render0:amd64 libxcb-render0 1.15-1 install ok installed libxcb-shape0:amd64 libxcb-shape0 1.15-1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.15-1 install ok installed libxcb-sync1:amd64 libxcb-sync1 1.15-1 install ok installed libxcb-util1:amd64 libxcb-util1 0.4.0-1+b1 install ok installed libxcb-xfixes0:amd64 libxcb-xfixes0 1.15-1 install ok installed libxcb-xinerama0:amd64 libxcb-xinerama0 1.15-1 install ok installed libxcb-xinput0:amd64 libxcb-xinput0 1.15-1 install ok installed libxcb-xkb1:amd64 libxcb-xkb1 1.15-1 install ok installed libxcb1:amd64 libxcb1 1.15-1 install ok installed libxcomposite1:amd64 libxcomposite1 1:0.4.5-1 install ok installed libxcursor1:amd64 libxcursor1 1:1.2.1-1 install ok installed libxdamage1:amd64 libxdamage1 1:1.1.6-1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b1 install ok installed libxfixes3:amd64 libxfixes3 1:6.0.0-2 install ok installed libxft2:amd64 libxft2 2.3.6-1+b1 install ok installed libxi6:amd64 libxi6 2:1.8.1-1 install ok installed libxinerama1:amd64 libxinerama1 2:1.1.4-3 install ok installed libxkbcommon-x11-0:amd64 libxkbcommon-x11-0 1.6.0-1 install ok installed libxkbcommon0:amd64 libxkbcommon0 1.6.0-1 install ok installed libxml2:amd64 libxml2 2.9.14+dfsg-1.3+b2 install ok installed libxrandr2:amd64 libxrandr2 2:1.5.2-2+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1 install ok installed libxshmfence1:amd64 libxshmfence1 1.3-1 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.35-1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1 install ok installed libxtst6:amd64 libxtst6 2:1.2.3-1.1 install ok installed libxxf86vm1:amd64 libxxf86vm1 1:1.1.4-1+b2 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libz3-4:amd64 libz3-4 4.8.12-3.1+b2 install ok installed libzstd1:amd64 libzstd1 1.5.5+dfsg2-2 install ok installed linux-libc-dev linux-libc-dev 6.6.15-2 install ok installed login login 1:4.13+dfsg1-4 install ok installed logsave logsave 1.47.0-2.3 install ok installed mawk mawk 1.3.4.20240123-1 install ok installed media-types media-types 10.1.0 install ok installed mount mount 2.39.3-6.1 install ok installed ncurses-base ncurses-base 6.4+20240113-1 install ok installed ncurses-bin ncurses-bin 6.4+20240113-1 install ok installed netbase netbase 6.4 install ok installed openssl openssl 3.1.5-1.1 install ok installed passwd passwd 1:4.13+dfsg1-4 install ok installed perl-base perl-base 5.38.2-3 install ok installed procps procps 2:4.0.4-4 install ok installed pymol-data pymol-data 2.5.0+dfsg-1 install ok installed python-matplotlib-data python-matplotlib-data 3.6.3-1 install ok installed python3 python3 3.11.6-1 install ok installed python3-appdirs python3-appdirs 1.4.4-4 install ok installed python3-attr python3-attr 23.2.0-2 install ok installed python3-brotli python3-brotli 1.1.0-2+b3 install ok installed python3-cctbx python3-cctbx 2023.12+ds2+~3.17.0+ds1-4 install ok installed python3-certifi python3-certifi 2023.11.17-1 install ok installed python3-chardet python3-chardet 5.2.0+dfsg-1 install ok installed python3-charset-normalizer python3-charset-normalizer 3.3.2-1 install ok installed python3-contourpy python3-contourpy 1.0.7-1+b2 install ok installed python3-cycler python3-cycler 0.11.0-1 install ok installed python3-dateutil python3-dateutil 2.8.2-3 install ok installed python3-decorator python3-decorator 5.1.1-5 install ok installed python3-dev python3-dev 3.11.6-1 install ok installed python3-distutils python3-distutils 3.11.5-1 install ok installed python3-fonttools python3-fonttools 4.46.0-1 install ok installed python3-fs python3-fs 2.4.16-3 install ok installed python3-h5py python3-h5py 3.10.0-1 install ok installed python3-h5py-serial python3-h5py-serial 3.10.0-1 install ok installed python3-idna python3-idna 3.6-2 install ok installed python3-kiwisolver python3-kiwisolver 1.4.4-1+b2 install ok installed python3-lib2to3 python3-lib2to3 3.11.5-1 install ok installed python3-lxml:amd64 python3-lxml 5.1.0-1 install ok installed python3-lz4 python3-lz4 4.0.2+dfsg-1+b3 install ok installed python3-matplotlib python3-matplotlib 3.6.3-1+b2 install ok installed python3-minimal python3-minimal 3.11.6-1 install ok installed python3-mpmath python3-mpmath 1.2.1-2 install ok installed python3-mrcfile python3-mrcfile 1.4.3-3 install ok installed python3-numpy python3-numpy 1:1.24.2-2 install ok installed python3-nxmx python3-nxmx 0.0.3-2 install ok installed python3-opengl python3-opengl 3.1.7+dfsg-1 install ok installed python3-orderedset python3-orderedset 2.0.3+ds1-2 install ok installed python3-packaging python3-packaging 23.2-1 install ok installed python3-pil:amd64 python3-pil 10.2.0-1 install ok installed python3-pil.imagetk:amd64 python3-pil.imagetk 10.2.0-1 install ok installed python3-pint python3-pint 0.19.2-1 install ok installed python3-pkg-resources python3-pkg-resources 68.1.2-2 install ok installed python3-procrunner python3-procrunner 2.3.3-1 install ok installed python3-pycbf python3-pycbf 0.9.7+dfsg1-3.1 install ok installed python3-pymol python3-pymol 2.5.0+dfsg-1+b4 install ok installed python3-pyparsing python3-pyparsing 3.1.1-1 install ok installed python3-pyqt5 python3-pyqt5 5.15.10+dfsg-1 install ok installed python3-pyqt5.qtopengl python3-pyqt5.qtopengl 5.15.10+dfsg-1 install ok installed python3-pyqt5.sip python3-pyqt5.sip 12.13.0-1+b1 install ok installed python3-requests python3-requests 2.31.0+dfsg-1 install ok installed python3-scipy python3-scipy 1.11.4-6 install ok installed python3-six python3-six 1.16.0-4 install ok installed python3-sympy python3-sympy 1.12-7 install ok installed python3-tk:amd64 python3-tk 3.11.5-1 install ok installed python3-tqdm python3-tqdm 4.64.1-2 install ok installed python3-tz python3-tz 2024.1-2 install ok installed python3-ufolib2 python3-ufolib2 0.16.0+dfsg1-1 install ok installed python3-unicodedata2 python3-unicodedata2 15.1.0+ds-1+b1 install ok installed python3-urllib3 python3-urllib3 1.26.18-2 install ok installed python3-wxgtk4.0 python3-wxgtk4.0 4.2.1+dfsg-3 install ok installed python3.11 python3.11 3.11.8-2 install ok installed python3.11-dev python3.11-dev 3.11.8-2 install ok installed python3.11-minimal python3.11-minimal 3.11.8-2 install ok installed python3.12 python3.12 3.12.2-3 install ok installed python3.12-minimal python3.12-minimal 3.12.2-3 install ok installed readline-common readline-common 8.2-3.1 install ok installed rpcsvc-proto rpcsvc-proto 1.4.3-1 install ok installed sed sed 4.9-2 install ok installed shared-mime-info shared-mime-info 2.4-1 install ok installed sphinx-rtd-theme-common sphinx-rtd-theme-common 2.0.0+dfsg-1 install ok installed systemd systemd 255.4-1 install ok installed systemd-dev systemd-dev 255.4-1 install ok installed systemd-sysv systemd-sysv 255.4-1 install ok installed sysvinit-utils sysvinit-utils 3.08-7 install ok installed tar tar 1.35+dfsg-3 install ok installed tk8.6-blt2.5 tk8.6-blt2.5 2.5.3+dfsg-7 install ok installed tzdata tzdata 2024a-1 install ok installed unicode-data unicode-data 15.1.0-1 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.39.3-6.1 install ok installed x11-common x11-common 1:7.7+23 install ok installed xkb-data xkb-data 2.41-2 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg-3+b1 install ok installed zlib1g-dev:amd64 zlib1g-dev 1:1.3.dfsg-3+b1 3m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 3m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', '-y', '--no-install-recommends', '--force-yes', 'install', 'libssl3:amd64=3.1.5-1', 'adduser-', 'adwaita-icon-theme-', 'at-spi2-common-', 'blt-', 'ca-certificates-', 'dbus-', 'dbus-bin-', 'dbus-daemon-', 'dbus-session-bus-common-', 'dbus-system-bus-common-', 'dbus-user-session-', 'dconf-gsettings-backend:amd64-', 'dconf-service-', 'dmsetup-', 'fontconfig-', 'fontconfig-config-', 'fonts-dejavu-core-', 'fonts-dejavu-mono-', 'fonts-font-awesome-', 'fonts-lato-', 'fonts-lyx-', 'gcc-13-base:amd64-', 'gtk-update-icon-cache-', 'hicolor-icon-theme-', 'libaec0:amd64-', 'libann-cctbx-dev-', 'libann-cctbx0-', 'libantlr3c-3.4-0:amd64-', 'libapparmor1:amd64-', 'libargon2-1:amd64-', 'libasan8:amd64-', 'libatk-bridge2.0-0:amd64-', 'libatk1.0-0:amd64-', 'libatomic1:amd64-', 'libatspi2.0-0:amd64-', 'libavahi-client3:amd64-', 'libavahi-common-data:amd64-', 'libavahi-common3:amd64-', 'libblas3:amd64-', 'libboost-numpy1.83.0-', 'libboost-python-dev-', 'libboost-python1.83-dev-', 'libboost-python1.83.0-', 'libboost-thread1.83.0:amd64-', 'libboost1.83-dev:amd64-', 'libbrotli1:amd64-', 'libbsd0:amd64-', 'libc-dev-bin-', 'libc6-dev:amd64-', 'libcairo-gobject2:amd64-', 'libcairo2:amd64-', 'libcbf1t64:amd64-', 'libccp4-data-', 'libccp4-dev:amd64-', 'libccp4c0:amd64-', 'libccp4f0:amd64-', 'libcctbx-dev-', 'libcctbx0-', 'libcloudproviders0:amd64-', 'libcolord2:amd64-', 'libcrypt-dev:amd64-', 'libcryptsetup12:amd64-', 'libcups2:amd64-', 'libcurl3-gnutls:amd64-', 'libcurl4:amd64-', 'libdatrie1:amd64-', 'libdbus-1-3:amd64-', 'libdconf1:amd64-', 'libdeflate0:amd64-', 'libdevmapper1.02.1:amd64-', 'libdouble-conversion3:amd64-', 'libdrm-amdgpu1:amd64-', 'libdrm-common-', 'libdrm-intel1:amd64-', 'libdrm-nouveau2:amd64-', 'libdrm-radeon1:amd64-', 'libdrm2:amd64-', 'libedit2:amd64-', 'libegl-mesa0:amd64-', 'libegl1:amd64-', 'libelf1t64:amd64-', 'libepoxy0:amd64-', 'libevdev2:amd64-', 'libexpat1:amd64-', 'libexpat1-dev:amd64-', 'libfdisk1:amd64-', 'libfontconfig1:amd64-', 'libfreetype6:amd64-', 'libfribidi0:amd64-', 'libgbm1:amd64-', 'libgcc-13-dev:amd64-', 'libgdk-pixbuf-2.0-0:amd64-', 'libgdk-pixbuf2.0-common-', 'libgfortran5:amd64-', 'libgl1:amd64-', 'libgl1-mesa-dri:amd64-', 'libglapi-mesa:amd64-', 'libglew2.2:amd64-', 'libglib2.0-0t64:amd64-', 'libglu1-mesa:amd64-', 'libglvnd0:amd64-', 'libglx-mesa0:amd64-', 'libglx0:amd64-', 'libgomp1:amd64-', 'libgraphite2-3:amd64-', 'libgssapi-krb5-2:amd64-', 'libgtk-3-0:amd64-', 'libgtk-3-common-', 'libgudev-1.0-0:amd64-', 'libharfbuzz0b:amd64-', 'libhdf5-103-1t64:amd64-', 'libhdf5-hl-100:amd64-', 'libhwasan0:amd64-', 'libice6:amd64-', 'libicu72:amd64-', 'libimagequant0:amd64-', 'libinput-bin-', 'libinput10:amd64-', 'libitm1:amd64-', 'libjbig0:amd64-', 'libjpeg62-turbo:amd64-', 'libjs-jquery-', 'libjs-jquery-ui-', 'libjs-sphinxdoc-', 'libjs-underscore-', 'libjson-c5:amd64-', 'libk5crypto3:amd64-', 'libkeyutils1:amd64-', 'libkmod2:amd64-', 'libkrb5-3:amd64-', 'libkrb5support0:amd64-', 'liblapack3:amd64-', 'liblbfgsb0:amd64-', 'liblcms2-2:amd64-', 'libldap-2.5-0:amd64-', 'liblerc4:amd64-', 'libllvm17:amd64-', 'liblsan0:amd64-', 'liblzf1:amd64-', 'libmd4c0:amd64-', 'libmmdb2-0:amd64-', 'libmtdev1:amd64-', 'libncursesw6:amd64-', 'libnetcdf19:amd64-', 'libnghttp2-14:amd64-', 'libnotify4:amd64-', 'libnsl2:amd64-', 'libopengl0:amd64-', 'libopenjp2-7:amd64-', 'libpam-systemd:amd64-', 'libpango-1.0-0:amd64-', 'libpangocairo-1.0-0:amd64-', 'libpangoft2-1.0-0:amd64-', 'libpciaccess0:amd64-', 'libpcre2-16-0:amd64-', 'libpcre2-32-0:amd64-', 'libpixman-1-0:amd64-', 'libpng16-16:amd64-', 'libproc2-0:amd64-', 'libpsl5:amd64-', 'libpython3-dev:amd64-', 'libpython3-stdlib:amd64-', 'libpython3.11-dev:amd64-', 'libpython3.11-minimal:amd64-', 'libpython3.11-stdlib:amd64-', 'libpython3.11t64:amd64-', 'libpython3.12-minimal:amd64-', 'libpython3.12-stdlib:amd64-', 'libqhull-r8.0:amd64-', 'libqt5core5a:amd64-', 'libqt5dbus5:amd64-', 'libqt5designer5:amd64-', 'libqt5gui5:amd64-', 'libqt5help5:amd64-', 'libqt5network5:amd64-', 'libqt5opengl5:amd64-', 'libqt5printsupport5:amd64-', 'libqt5sql5:amd64-', 'libqt5test5:amd64-', 'libqt5widgets5:amd64-', 'libqt5xml5:amd64-', 'libquadmath0:amd64-', 'libraqm0:amd64-', 'libreadline8t64:amd64-', 'librtmp1:amd64-', 'libsasl2-2:amd64-', 'libsasl2-modules-db:amd64-', 'libsensors-config-', 'libsensors5:amd64-', 'libsharpyuv0:amd64-', 'libsm6:amd64-', 'libsqlite3-0:amd64-', 'libssh2-1:amd64-', 'libssl3t64:amd64-', 'libssm2:amd64-', 'libstdc++-13-dev:amd64-', 'libsystemd-shared:amd64-', 'libsz2:amd64-', 'libtcl8.6:amd64-', 'libthai-data-', 'libthai0:amd64-', 'libtiff6:amd64-', 'libtirpc-common-', 'libtirpc3:amd64-', 'libtk8.6:amd64-', 'libtsan2:amd64-', 'libubsan1:amd64-', 'libvulkan1:amd64-', 'libwacom-common-', 'libwacom9:amd64-', 'libwayland-client0:amd64-', 'libwayland-cursor0:amd64-', 'libwayland-egl1:amd64-', 'libwayland-server0:amd64-', 'libwebp7:amd64-', 'libwebpdemux2:amd64-', 'libwebpmux3:amd64-', 'libwxbase3.2-1:amd64-', 'libwxgtk-gl3.2-1:amd64-', 'libwxgtk3.2-1:amd64-', 'libx11-6:amd64-', 'libx11-data-', 'libx11-xcb1:amd64-', 'libxau6:amd64-', 'libxcb-dri2-0:amd64-', 'libxcb-dri3-0:amd64-', 'libxcb-glx0:amd64-', 'libxcb-icccm4:amd64-', 'libxcb-image0:amd64-', 'libxcb-keysyms1:amd64-', 'libxcb-present0:amd64-', 'libxcb-randr0:amd64-', 'libxcb-render-util0:amd64-', 'libxcb-render0:amd64-', 'libxcb-shape0:amd64-', 'libxcb-shm0:amd64-', 'libxcb-sync1:amd64-', 'libxcb-util1:amd64-', 'libxcb-xfixes0:amd64-', 'libxcb-xinerama0:amd64-', 'libxcb-xinput0:amd64-', 'libxcb-xkb1:amd64-', 'libxcb1:amd64-', 'libxcomposite1:amd64-', 'libxcursor1:amd64-', 'libxdamage1:amd64-', 'libxdmcp6:amd64-', 'libxext6:amd64-', 'libxfixes3:amd64-', 'libxft2:amd64-', 'libxi6:amd64-', 'libxinerama1:amd64-', 'libxkbcommon-x11-0:amd64-', 'libxkbcommon0:amd64-', 'libxml2:amd64-', 'libxrandr2:amd64-', 'libxrender1:amd64-', 'libxshmfence1:amd64-', 'libxslt1.1:amd64-', 'libxss1:amd64-', 'libxtst6:amd64-', 'libxxf86vm1:amd64-', 'libz3-4:amd64-', 'linux-libc-dev-', 'media-types-', 'netbase-', 'openssl-', 'procps-', 'pymol-data-', 'python-matplotlib-data-', 'python3-', 'python3-appdirs-', 'python3-attr-', 'python3-brotli-', 'python3-certifi-', 'python3-chardet-', 'python3-charset-normalizer-', 'python3-contourpy-', 'python3-cycler-', 'python3-dateutil-', 'python3-decorator-', 'python3-dev-', 'python3-distutils-', 'python3-fonttools-', 'python3-fs-', 'python3-h5py-', 'python3-h5py-serial-', 'python3-idna-', 'python3-kiwisolver-', 'python3-lib2to3-', 'python3-lxml:amd64-', 'python3-lz4-', 'python3-matplotlib-', 'python3-minimal-', 'python3-mpmath-', 'python3-mrcfile-', 'python3-numpy-', 'python3-nxmx-', 'python3-opengl-', 'python3-orderedset-', 'python3-packaging-', 'python3-pil:amd64-', 'python3-pil.imagetk:amd64-', 'python3-pint-', 'python3-pkg-resources-', 'python3-procrunner-', 'python3-pycbf-', 'python3-pymol-', 'python3-pyparsing-', 'python3-pyqt5-', 'python3-pyqt5.qtopengl-', 'python3-pyqt5.sip-', 'python3-requests-', 'python3-scipy-', 'python3-six-', 'python3-sympy-', 'python3-tk:amd64-', 'python3-tqdm-', 'python3-tz-', 'python3-ufolib2-', 'python3-unicodedata2-', 'python3-urllib3-', 'python3-wxgtk4.0-', 'python3.11-', 'python3.11-dev-', 'python3.11-minimal-', 'python3.12-', 'python3.12-minimal-', 'readline-common-', 'rpcsvc-proto-', 'shared-mime-info-', 'sphinx-rtd-theme-common-', 'systemd-', 'systemd-dev-', 'systemd-sysv-', 'tk8.6-blt2.5-', 'unicode-data-', 'x11-common-', 'xkb-data-', 'zlib1g-dev:amd64-', 'python3-cctbx-'] 3m34.4s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: adduser adwaita-icon-theme at-spi2-common blt ca-certificates dbus dbus-bin dbus-daemon dbus-session-bus-common dbus-system-bus-common dbus-user-session dconf-gsettings-backend dconf-service dmsetup fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome fonts-lato fonts-lyx gcc-13-base gtk-update-icon-cache hicolor-icon-theme libaec0 libann-cctbx-dev libann-cctbx0 libantlr3c-3.4-0 libapparmor1 libargon2-1 libasan8 libatk-bridge2.0-0 libatk1.0-0 libatomic1 libatspi2.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libboost-numpy1.83.0 libboost-python-dev libboost-python1.83-dev libboost-python1.83.0 libboost-thread1.83.0 libboost1.83-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo-gobject2 libcairo2 libcbf1t64 libccp4-data libccp4-dev libccp4c0 libccp4f0 libcctbx-dev libcctbx0 libcloudproviders0 libcolord2 libcrypt-dev libcryptsetup12 libcups2 libcurl3-gnutls libcurl4 libdatrie1 libdbus-1-3 libdconf1 libdeflate0 libdevmapper1.02.1 libdouble-conversion3 libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libegl-mesa0 libegl1 libelf1t64 libepoxy0 libevdev2 libexpat1 libexpat1-dev libfdisk1 libfontconfig1 libfreetype6 libfribidi0 libgbm1 libgcc-13-dev libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgl1 libgl1-mesa-dri libglapi-mesa libglew2.2 libglib2.0-0t64 libglu1-mesa libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libgtk-3-0 libgtk-3-common libgudev-1.0-0 libharfbuzz0b libhdf5-103-1t64 libhdf5-hl-100 libhwasan0 libice6 libicu72 libimagequant0 libinput-bin libinput10 libitm1 libjbig0 libjpeg62-turbo libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjson-c5 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblerc4 libllvm17 liblsan0 liblzf1 libmd4c0 libmmdb2-0 libmtdev1 libncursesw6 libnetcdf19 libnghttp2-14 libnotify4 libnsl2 libopengl0 libopenjp2-7 libpam-systemd libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpciaccess0 libpcre2-16-0 libpcre2-32-0 libpixman-1-0 libpng16-16 libproc2-0 libpsl5 libpython3-dev libpython3-stdlib libpython3.11-dev libpython3.11-minimal libpython3.11-stdlib libpython3.11t64 libpython3.12-minimal libpython3.12-stdlib libqhull-r8.0 libqt5core5a libqt5dbus5 libqt5designer5 libqt5gui5 libqt5help5 libqt5network5 libqt5opengl5 libqt5printsupport5 libqt5sql5 libqt5test5 libqt5widgets5 libqt5xml5 libquadmath0 libraqm0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsharpyuv0 libsm6 libsqlite3-0 libssh2-1 libssl3t64 libssm2 libstdc++-13-dev libsystemd-shared libsz2 libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-common libtirpc3 libtk8.6 libtsan2 libubsan1 libvulkan1 libwacom-common libwacom9 libwayland-client0 libwayland-cursor0 libwayland-egl1 libwayland-server0 libwebp7 libwebpdemux2 libwebpmux3 libwxbase3.2-1 libwxgtk-gl3.2-1 libwxgtk3.2-1 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-icccm4 libxcb-image0 libxcb-keysyms1 libxcb-present0 libxcb-randr0 libxcb-render-util0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-util1 libxcb-xfixes0 libxcb-xinerama0 libxcb-xinput0 libxcb-xkb1 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon-x11-0 libxkbcommon0 libxml2 libxrandr2 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxtst6 libxxf86vm1 libz3-4 linux-libc-dev media-types netbase openssl procps pymol-data python-matplotlib-data python3 python3-appdirs python3-attr python3-brotli python3-cctbx python3-certifi python3-chardet python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-decorator python3-dev python3-distutils python3-fonttools python3-fs python3-h5py python3-h5py-serial python3-idna python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-mpmath python3-mrcfile python3-numpy python3-nxmx python3-opengl python3-orderedset python3-packaging python3-pil python3-pil.imagetk python3-pint python3-pkg-resources python3-procrunner python3-pycbf python3-pymol python3-pyparsing python3-pyqt5 python3-pyqt5.qtopengl python3-pyqt5.sip python3-requests python3-scipy python3-six python3-sympy python3-tk python3-tqdm python3-tz python3-ufolib2 python3-unicodedata2 python3-urllib3 python3-wxgtk4.0 python3.11 python3.11-dev python3.11-minimal python3.12 python3.12-minimal readline-common rpcsvc-proto shared-mime-info sphinx-rtd-theme-common systemd systemd-dev systemd-sysv tk8.6-blt2.5 unicode-data x11-common xkb-data zlib1g-dev The following NEW packages will be installed: libssl3 0 upgraded, 1 newly installed, 341 to remove and 0 not upgraded. Need to get 2063 kB of archives. After this operation, 1794 MB disk space will be freed. Get:1 http://deb.debian.org/debian sid/main amd64 libssl3 amd64 3.1.5-1 [2063 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2063 kB in 0s (20.6 MB/s) (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 ... 54066 files and directories currently installed.) Removing python3-cctbx (2023.12+ds2+~3.17.0+ds1-4) ... Removing python3-wxgtk4.0 (4.2.1+dfsg-3) ... Removing libwxgtk-gl3.2-1:amd64 (3.2.4+dfsg-3) ... Removing libwxgtk3.2-1:amd64 (3.2.4+dfsg-3) ... Removing libgtk-3-0:amd64 (3.24.41-1) ... Removing libgtk-3-common (3.24.41-1.1) ... Removing dconf-gsettings-backend:amd64 (0.40.0-4+b1) ... Removing dconf-service (0.40.0-4+b1) ... Removing dbus-user-session (1.14.10-4) ... Removing libpam-systemd:amd64 (255.4-1) ... Removing dbus (1.14.10-4) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of stop. Removing dbus-system-bus-common (1.14.10-4) ... Removing adduser (3.137) ... Removing adwaita-icon-theme (46~beta-4) ... Removing libatk-bridge2.0-0:amd64 (2.50.0-1+b1) ... Removing libatk1.0-0:amd64 (2.50.0-1+b1) ... Removing at-spi2-common (2.51.90-1) ... Removing python3-matplotlib (3.6.3-1+b2) ... Removing python3-pil.imagetk:amd64 (10.2.0-1) ... Removing python3-pil:amd64 (10.2.0-1) ... Removing python3-tk:amd64 (3.11.5-1) ... Removing blt (2.5.3+dfsg-7) ... Removing python3-requests (2.31.0+dfsg-1) ... Removing python3-certifi (2023.11.17-1) ... Removing ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing dbus-daemon (1.14.10-4) ... Removing dbus-bin (1.14.10-4) ... Removing dbus-session-bus-common (1.14.10-4) ... Removing systemd-sysv (255.4-1) ... Removing systemd (255.4-1) ... Removing libcryptsetup12:amd64 (2:2.7.0-1) ... Removing python3-pymol (2.5.0+dfsg-1+b4) ... Removing python3-pyqt5.qtopengl (5.15.10+dfsg-1) ... Removing python3-pyqt5 (5.15.10+dfsg-1) ... Removing libqt5help5:amd64 (5.15.10-6) ... Removing libqt5designer5:amd64 (5.15.10-6) ... Removing libpangocairo-1.0-0:amd64 (1.52.0+ds-1) ... Removing libpangoft2-1.0-0:amd64 (1.52.0+ds-1) ... Removing libpango-1.0-0:amd64 (1.52.0+ds-1) ... Removing tk8.6-blt2.5 (2.5.3+dfsg-7) ... Removing libtk8.6:amd64 (8.6.13-2+b1) ... Removing libxft2:amd64 (2.3.6-1+b1) ... Removing libcairo-gobject2:amd64 (1.18.0-1+b1) ... Removing libcairo2:amd64 (1.18.0-1+b1) ... Removing python-matplotlib-data (3.6.3-1) ... Removing python3-mrcfile (1.4.3-3) ... Removing sphinx-rtd-theme-common (2.0.0+dfsg-1) ... Removing fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Removing fonts-lato (2.015-1) ... Removing fonts-lyx (2.4.0~RC3-1) ... Removing libcctbx-dev (2023.12+ds2+~3.17.0+ds1-4) ... Removing libboost-python-dev (1.83.0.2+b2) ... Removing libboost-python1.83-dev (1.83.0-2.1) ... Removing libboost1.83-dev:amd64 (1.83.0-2.1) ... Removing libstdc++-13-dev:amd64 (13.2.0-16.1) ... Removing libgcc-13-dev:amd64 (13.2.0-16.1) ... Removing gcc-13-base:amd64 (13.2.0-16.1) ... Removing gtk-update-icon-cache (3.24.41-1.1) ... Removing hicolor-icon-theme (0.17-2) ... Removing libnetcdf19:amd64 (1:4.9.2-3+b1) ... Removing python3-nxmx (0.0.3-2) ... Removing python3-h5py (3.10.0-1) ... Removing python3-h5py-serial (3.10.0-1) ... Removing libhdf5-hl-100:amd64 (1.10.10+repack-3+b1) ... Removing libann-cctbx-dev (1.1.2+doc-9+b1) ... Removing libcctbx0 (2023.12+ds2+~3.17.0+ds1-4) ... Removing libann-cctbx0 (1.1.2+doc-9+b1) ... Removing libantlr3c-3.4-0:amd64 (3.4+dfsg-4) ... Removing libsystemd-shared:amd64 (255.4-1) ... Removing libapparmor1:amd64 (3.0.12-1+b2) ... Removing libargon2-1:amd64 (0~20190702+dfsg-4+b1) ... Removing libasan8:amd64 (14-20240221-2.1) ... Removing libatomic1:amd64 (14-20240221-2.1) ... Removing libatspi2.0-0:amd64 (2.50.0-1+b1) ... Removing libqt5printsupport5:amd64 (5.15.10+dfsg-7) ... Removing libcups2:amd64 (2.4.7-1+b1) ... Removing libavahi-client3:amd64 (0.8-13+b1) ... Removing libavahi-common3:amd64 (0.8-13+b1) ... Removing libavahi-common-data:amd64 (0.8-13+b1) ... Removing python3-contourpy (1.0.7-1+b2) ... Removing libboost-numpy1.83.0 (1.83.0-2.1) ... Removing libboost-python1.83.0 (1.83.0-2.1) ... Removing libboost-thread1.83.0:amd64 (1.83.0-2.1) ... Removing libraqm0:amd64 (0.10.1-1+b1) ... Removing libwxbase3.2-1:amd64 (3.2.4+dfsg-3) ... Removing python3-dev (3.11.6-1) ... Removing python3.11-dev (3.11.8-2) ... Removing libpython3-dev:amd64 (3.11.6-1) ... Removing libpython3.11-dev:amd64 (3.11.8-2) ... Removing zlib1g-dev:amd64 (1:1.3.dfsg-3+b1) ... Removing libexpat1-dev:amd64 (2.6.0-1) ... Removing libc6-dev:amd64 (2.37-15.1) ... Removing libc-dev-bin (2.37-15.1) ... Removing python3-pycbf (0.9.7+dfsg1-3.1) ... Removing libcbf1t64:amd64 (0.9.7+dfsg1-3.1) ... Removing libccp4-dev:amd64 (8.0.0-2) ... Removing libccp4f0:amd64 (8.0.0-2) ... Removing libccp4c0:amd64 (8.0.0-2) ... Removing libccp4-data (8.0.0-2) ... Removing libcloudproviders0:amd64 (0.3.5-1) ... Removing libcolord2:amd64 (1.4.7-1) ... Removing libcrypt-dev:amd64 (1:4.4.36-4) ... Removing libcurl3-gnutls:amd64 (8.6.0-3) ... Removing libthai0:amd64 (0.1.29-2) ... Removing libdatrie1:amd64 (0.2.13-3) ... Removing libdconf1:amd64 (0.40.0-4+b1) ... Removing libnotify4:amd64 (0.8.3-1) ... Removing libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-3+b1) ... Removing libtiff6:amd64 (4.5.1+git230720-4) ... Removing libdeflate0:amd64 (1.19-1) ... Removing libqt5xml5:amd64 (5.15.10+dfsg-7) ... Removing libqt5opengl5:amd64 (5.15.10+dfsg-7) ... Removing libqt5widgets5:amd64 (5.15.10+dfsg-7) ... Removing libqt5test5:amd64 (5.15.10+dfsg-7) ... Removing python3-opengl (3.1.7+dfsg-1) ... Removing libglew2.2:amd64 (2.2.0-4+b1) ... Removing libepoxy0:amd64 (1.5.10-1+b2) ... Removing python3-distutils (3.11.5-1) ... Removing python3-tqdm (4.64.1-2) ... Removing libfdisk1:amd64 (2.39.3-6.1) ... Removing libfribidi0:amd64 (1.0.13-3+b1) ... Removing libgdk-pixbuf2.0-common (2.42.10+dfsg-3) ... Removing libglu1-mesa:amd64 (9.0.2-1.1) ... Removing libopengl0:amd64 (1.7.0-1) ... Removing libimagequant0:amd64 (2.18.0-1) ... Removing libgomp1:amd64 (14-20240221-2.1) ... Removing libpython3.11t64:amd64 (3.11.8-2) ... Removing libhwasan0:amd64 (14-20240221-2.1) ... Removing libitm1:amd64 (14-20240221-2.1) ... Removing libjbig0:amd64 (2.1-6.1+b1) ... Removing libjs-sphinxdoc (7.2.6-4) ... Removing libjs-jquery-ui (1.13.2+dfsg-1) ... Removing libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Removing libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Removing libjson-c5:amd64 (0.17-1+b1) ... Removing libkmod2:amd64 (31+20240202-2) ... Removing liblcms2-2:amd64 (2.14-2+b1) ... Removing liblerc4:amd64 (4.0.0+ds-4+b1) ... Removing liblsan0:amd64 (14-20240221-2.1) ... Removing liblzf1:amd64 (3.6-4) ... Removing libssm2:amd64 (1.4.0-2+b1) ... Removing libmmdb2-0:amd64 (2.0.22-1+b1) ... Removing procps (2:4.0.4-4) ... Removing libopenjp2-7:amd64 (2.5.0-2+b2) ... Removing libpcre2-32-0:amd64 (10.42-4+b1) ... Removing libpixman-1-0:amd64 (0.42.2-1+b1) ... Removing libproc2-0:amd64 (2:4.0.4-4) ... Removing libqhull-r8.0:amd64 (2020.2-6+b1) ... Removing libqt5sql5:amd64 (5.15.10+dfsg-7) ... Removing libquadmath0:amd64 (14-20240221-2.1) ... Removing libwebpmux3:amd64 (1.3.2-0.4) ... Removing libwebpdemux2:amd64 (1.3.2-0.4) ... Removing libwebp7:amd64 (1.3.2-0.4) ... Removing libsharpyuv0:amd64 (1.3.2-0.4) ... Removing openssl (3.1.5-1.1) ... Removing libqt5gui5:amd64 (5.15.10+dfsg-7) ... Removing fontconfig (2.15.0-1) ... Removing libfontconfig1:amd64 (2.15.0-1) ... Removing fontconfig-config (2.15.0-1) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing libhdf5-103-1t64:amd64 (1.10.10+repack-3.1) ... Removing libsz2:amd64 (1.1.2-1) ... Removing libaec0:amd64 (1.1.2-1) ... Removing libharfbuzz0b:amd64 (8.3.0-2) ... Removing libfreetype6:amd64 (2.13.2+dfsg-1+b1) ... Removing libcurl4:amd64 (8.6.0-3) ... Removing libbrotli1:amd64 (1.1.0-2+b3) ... Removing libxcb-icccm4:amd64 (0.4.1-1.1+b1) ... Removing libxcb-render-util0:amd64 (0.3.9-1+b1) ... Removing libsm6:amd64 (2:1.2.3-1) ... Removing libice6:amd64 (2:1.0.10-1) ... Removing libqt5network5:amd64 (5.15.10+dfsg-7) ... Removing libqt5dbus5:amd64 (5.15.10+dfsg-7) ... Removing libdbus-1-3:amd64 (1.14.10-4) ... Removing libqt5core5a:amd64 (5.15.10+dfsg-7) ... Removing libdouble-conversion3:amd64 (3.3.0-1+b1) ... Removing libgl1:amd64 (1.7.0-1) ... Removing libglx0:amd64 (1.7.0-1) ... Removing libglx-mesa0:amd64 (24.0.2-1) ... Removing libgl1-mesa-dri:amd64 (24.0.2-1) ... Removing libdrm-amdgpu1:amd64 (2.4.120-2) ... Removing libegl1:amd64 (1.7.0-1) ... Removing libegl-mesa0:amd64 (24.0.2-1) ... Removing libgbm1:amd64 (24.0.2-1) ... Removing libdrm-intel1:amd64 (2.4.120-2) ... Removing libdrm-nouveau2:amd64 (2.4.120-2) ... Removing libdrm-radeon1:amd64 (2.4.120-2) ... Removing libllvm17:amd64 (1:17.0.6-5) ... Removing libedit2:amd64 (3.1-20230828-1) ... Removing libelf1t64:amd64 (0.190-1.1) ... Removing libinput10:amd64 (1.25.0-1) ... Removing libinput-bin (1.25.0-1) ... dpkg: warning: while removing libinput-bin, directory '/lib/udev/rules.d' not empty so not removed Removing libwacom9:amd64 (2.10.0-1) ... Removing libevdev2:amd64 (1.13.1+dfsg-1) ... Removing libglapi-mesa:amd64 (24.0.2-1) ... Removing shared-mime-info (2.4-1) ... Removing libgudev-1.0-0:amd64 (238-3) ... Removing libglib2.0-0t64:amd64 (2.78.4-2.1) ... Removing libglvnd0:amd64 (1.7.0-1) ... Removing libgraphite2-3:amd64 (1.3.14-2) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-2+b2) ... Removing libldap-2.5-0:amd64 (2.5.13+dfsg-5+b3) ... Removing libmd4c0:amd64 (0.4.8-1+b1) ... Removing libmtdev1:amd64 (1.1.6-1+b1) ... Removing libnghttp2-14:amd64 (1.59.0-1) ... Removing libpciaccess0:amd64 (0.17-3) ... Removing libpcre2-16-0:amd64 (10.42-4+b1) ... Removing libpng16-16:amd64 (1.6.43-1) ... Removing libpsl5:amd64 (0.21.2-1+b1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-4+b1) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-4+b1) ... Removing libsensors5:amd64 (1:3.6.0-9) ... Removing libsensors-config (1:3.6.0-9) ... Removing libssh2-1:amd64 (1.11.0-4) ... Removing libdrm2:amd64 (2.4.120-2) ... Removing libdrm-common (2.4.120-2) ... Removing dmsetup (2:1.02.196-1) ... Removing libdevmapper1.02.1:amd64 (2:1.02.196-1) ... Removing python3-fonttools (4.46.0-1) ... Removing python3-scipy (1.11.4-6) ... Removing python3-numpy (1:1.24.2-2) ... Removing liblbfgsb0:amd64 (3.0+dfsg.4-1+b1) ... Removing liblapack3:amd64 (3.12.0-3) ... Removing libblas3:amd64 (3.12.0-3) ... Removing python3.12 (3.12.2-3) ... Removing python3.12-minimal (3.12.2-3) ... Removing python3-unicodedata2 (15.1.0+ds-1+b1) ... Removing libgfortran5:amd64 (14-20240221-2.1) ... Removing libpython3.12-stdlib:amd64 (3.12.2-3) ... Removing python3-lxml:amd64 (5.1.0-1) ... Removing libxslt1.1:amd64 (1.1.35-1) ... Removing libxml2:amd64 (2.9.14+dfsg-1.3+b2) ... Removing libicu72:amd64 (72.1-4+b1) ... Removing libpython3.12-minimal:amd64 (3.12.2-3) ... Removing python3-ufolib2 (0.16.0+dfsg1-1) ... dpkg: python3: dependency problems, but removing anyway as you requested: python3-urllib3 depends on python3:any. python3-tz depends on python3:any. python3-sympy depends on python3:any. python3-six depends on python3:any. python3-pyqt5.sip depends on python3 (<< 3.13). python3-pyqt5.sip depends on python3 (>= 3.11~). python3-pyqt5.sip depends on python3 (<< 3.13). python3-pyqt5.sip depends on python3 (>= 3.11~). python3-pyparsing depends on python3:any. python3-procrunner depends on python3:any. python3-pkg-resources depends on python3:any. python3-pint depends on python3:any. python3-packaging depends on python3:any. python3-orderedset depends on python3 (<< 3.13). python3-orderedset depends on python3 (>= 3.11~). python3-orderedset depends on python3:any. python3-orderedset depends on python3 (<< 3.13). python3-orderedset depends on python3 (>= 3.11~). python3-orderedset depends on python3:any. python3-orderedset depends on python3 (<< 3.13). python3-orderedset depends on python3 (>= 3.11~). python3-orderedset depends on python3:any. python3-mpmath depends on python3:any. python3-lz4 depends on python3 (<< 3.13). python3-lz4 depends on python3 (>= 3.11~). python3-lz4 depends on python3:any. python3-lz4 depends on python3 (<< 3.13). python3-lz4 depends on python3 (>= 3.11~). python3-lz4 depends on python3:any. python3-lz4 depends on python3 (<< 3.13). python3-lz4 depends on python3 (>= 3.11~). python3-lz4 depends on python3:any. python3-lib2to3 depends on python3:any (>= 3.11.2-0~). python3-lib2to3 depends on python3:any (<< 3.13). python3-lib2to3 depends on python3:any (>= 3.11.2-0~). python3-lib2to3 depends on python3:any (<< 3.13). python3-kiwisolver depends on python3 (<< 3.13). python3-kiwisolver depends on python3 (>= 3.11~). python3-kiwisolver depends on python3-typing-extensions | python3-supported-min (>= 3.8); however: Package python3-typing-extensions is not installed. Package python3-supported-min is not installed. Package python3 which provides python3-supported-min is to be removed. python3-kiwisolver depends on python3:any. python3-kiwisolver depends on python3 (<< 3.13). python3-kiwisolver depends on python3 (>= 3.11~). python3-kiwisolver depends on python3-typing-extensions | python3-supported-min (>= 3.8); however: Package python3-typing-extensions is not installed. Package python3-supported-min is not installed. Package python3 which provides python3-supported-min is to be removed. python3-kiwisolver depends on python3:any. python3-kiwisolver depends on python3 (<< 3.13). python3-kiwisolver depends on python3 (>= 3.11~). python3-kiwisolver depends on python3-typing-extensions | python3-supported-min (>= 3.8); however: Package python3-typing-extensions is not installed. Package python3-supported-min is not installed. Package python3 which provides python3-supported-min is to be removed. python3-kiwisolver depends on python3:any. python3-idna depends on python3:any. python3-fs depends on python3:any. python3-decorator depends on python3:any. python3-dateutil depends on python3:any. python3-cycler depends on python3:any. python3-charset-normalizer depends on python3:any. python3-chardet depends on python3:any. python3-brotli depends on python3 (<< 3.13). python3-brotli depends on python3 (>= 3.11~). python3-brotli depends on python3:any. python3-brotli depends on python3 (<< 3.13). python3-brotli depends on python3 (>= 3.11~). python3-brotli depends on python3:any. python3-brotli depends on python3 (<< 3.13). python3-brotli depends on python3 (>= 3.11~). python3-brotli depends on python3:any. python3-attr depends on python3-importlib-metadata | python3-supported-min (>= 3.8); however: Package python3-importlib-metadata is not installed. Package python3-supported-min is not installed. Package python3 which provides python3-supported-min is to be removed. python3-attr depends on python3:any. python3-appdirs depends on python3:any. python3-kiwisolver depends on python3 (<< 3.13). python3-kiwisolver depends on python3 (>= 3.11~). python3-kiwisolver depends on python3-typing-extensions | python3-supported-min (>= 3.8); however: Package python3-typing-extensions is not installed. Package python3-supported-min is not installed. Package python3 which provides python3-supported-min is to be removed. python3-kiwisolver depends on python3:any. python3-attr depends on python3-importlib-metadata | python3-supported-min (>= 3.8); however: Package python3-importlib-metadata is not installed. Package python3-supported-min is not installed. Package python3 which provides python3-supported-min is to be removed. python3-attr depends on python3:any. Removing python3 (3.11.6-1) ... Removing python3.11 (3.11.8-2) ... dpkg: python3.11-minimal: dependency problems, but removing anyway as you requested: python3-minimal depends on python3.11-minimal (>= 3.11.6-1~). Removing python3.11-minimal (3.11.8-2) ... Removing libexpat1:amd64 (2.6.0-1) ... dpkg: libpython3.11-stdlib:amd64: dependency problems, but removing anyway as you requested: libpython3-stdlib:amd64 depends on libpython3.11-stdlib (>= 3.11.6-1~). Removing libpython3.11-stdlib:amd64 (3.11.8-2) ... dpkg: libtirpc3:amd64: dependency problems, but removing anyway as you requested: libnsl2:amd64 depends on libtirpc3 (>= 1.0.2). Removing libtirpc3:amd64 (1.3.4+ds-1) ... Removing libgssapi-krb5-2:amd64 (1.20.1-5+b1) ... Removing libkrb5-3:amd64 (1.20.1-5+b1) ... Removing libk5crypto3:amd64 (1.20.1-5+b1) ... Removing libkeyutils1:amd64 (1.6.3-3) ... Removing libkrb5support0:amd64 (1.20.1-5+b1) ... Removing libncursesw6:amd64 (6.4+20240113-1) ... Removing libnsl2:amd64 (1.3.0-3) ... Removing libpython3-stdlib:amd64 (3.11.6-1) ... Removing python3-minimal (3.11.6-1) ... Removing libpython3.11-minimal:amd64 (3.11.8-2) ... Removing libreadline8t64:amd64 (8.2-3.1) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing libsqlite3-0:amd64 (3.45.1-1) ... dpkg: libssl3t64:amd64: dependency problems, but removing anyway as you requested: coreutils depends on libssl3 (>= 3.0.0); however: Package libssl3 is not installed. Package libssl3t64:amd64 which provides libssl3 is to be removed. Removing libssl3t64:amd64 (3.1.5-1.1) ... dpkg: libxcb1:amd64: dependency problems, but removing anyway as you requested: libxkbcommon-x11-0:amd64 depends on libxcb1 (>= 1.6). libxcb-xkb1:amd64 depends on libxcb1. libxcb-xinput0:amd64 depends on libxcb1 (>= 1.8). libxcb-xinerama0:amd64 depends on libxcb1. libxcb-xfixes0:amd64 depends on libxcb1. libxcb-util1:amd64 depends on libxcb1. libxcb-sync1:amd64 depends on libxcb1. libxcb-shm0:amd64 depends on libxcb1 (>= 1.12). libxcb-shape0:amd64 depends on libxcb1. libxcb-render0:amd64 depends on libxcb1 (>= 1.8). libxcb-randr0:amd64 depends on libxcb1 (>= 1.9.2). libxcb-present0:amd64 depends on libxcb1. libxcb-keysyms1:amd64 depends on libxcb1. libxcb-image0:amd64 depends on libxcb1. libxcb-glx0:amd64 depends on libxcb1. libxcb-dri3-0:amd64 depends on libxcb1 (>= 1.12). libxcb-dri2-0:amd64 depends on libxcb1. libx11-6:amd64 depends on libxcb1 (>= 1.11.1). Removing libxcb1:amd64 (1.15-1) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.12.1-1) ... Selecting previously unselected package libssl3:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12669 files and directories currently installed.) Preparing to unpack .../libssl3_3.1.5-1_amd64.deb ... Unpacking libssl3:amd64 (3.1.5-1) ... Setting up libssl3:amd64 (3.1.5-1) ... (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 ... 12681 files and directories currently installed.) Removing libtcl8.6:amd64 (8.6.13+dfsg-2+b1) ... Removing libthai-data (0.1.29-2) ... Removing libtirpc-common (1.3.4+ds-1.1) ... Removing libtsan2:amd64 (14-20240221-2.1) ... Removing libubsan1:amd64 (14-20240221-2.1) ... Removing libvulkan1:amd64 (1.3.275.0-1) ... Removing libwacom-common (2.10.0-1) ... Removing libwayland-cursor0:amd64 (1.22.0-2.1+b1) ... Removing libwayland-client0:amd64 (1.22.0-2.1+b1) ... Removing libwayland-egl1:amd64 (1.22.0-2.1+b1) ... Removing libwayland-server0:amd64 (1.22.0-2.1+b1) ... Removing libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Removing libxtst6:amd64 (2:1.2.3-1.1) ... Removing libx11-xcb1:amd64 (2:1.8.7-1) ... Removing libxau6:amd64 (1:1.0.9-1) ... Removing libxcb-dri2-0:amd64 (1.15-1) ... Removing libxcb-dri3-0:amd64 (1.15-1) ... Removing libxcb-glx0:amd64 (1.15-1) ... Removing libxcb-image0:amd64 (0.4.0-2+b1) ... Removing libxcb-keysyms1:amd64 (0.4.0-1+b2) ... Removing libxcb-present0:amd64 (1.15-1) ... Removing libxcb-randr0:amd64 (1.15-1) ... Removing libxcb-render0:amd64 (1.15-1) ... Removing libxcb-shape0:amd64 (1.15-1) ... Removing libxcb-shm0:amd64 (1.15-1) ... Removing libxcb-sync1:amd64 (1.15-1) ... Removing libxcb-util1:amd64 (0.4.0-1+b1) ... Removing libxcb-xfixes0:amd64 (1.15-1) ... Removing libxcb-xinerama0:amd64 (1.15-1) ... Removing libxcb-xinput0:amd64 (1.15-1) ... Removing libxkbcommon-x11-0:amd64 (1.6.0-1) ... Removing libxcb-xkb1:amd64 (1.15-1) ... Removing libxcomposite1:amd64 (1:0.4.5-1) ... Removing libxcursor1:amd64 (1:1.2.1-1) ... Removing libxdamage1:amd64 (1:1.1.6-1) ... Removing libxss1:amd64 (1:1.2.3-1) ... Removing libxfixes3:amd64 (1:6.0.0-2) ... Removing libxi6:amd64 (2:1.8.1-1) ... Removing libxinerama1:amd64 (2:1.1.4-3) ... Removing libxkbcommon0:amd64 (1.6.0-1) ... Removing libxrandr2:amd64 (2:1.5.2-2+b1) ... Removing libxrender1:amd64 (1:0.9.10-1.1) ... Removing libxshmfence1:amd64 (1.3-1) ... Removing libz3-4:amd64 (4.8.12-3.1+b2) ... Removing linux-libc-dev (6.6.15-2) ... Removing media-types (10.1.0) ... Removing netbase (6.4) ... Removing pymol-data (2.5.0+dfsg-1) ... Removing python3-fs (2.4.16-3) ... Removing python3-appdirs (1.4.4-4) ... Removing python3-attr (23.2.0-2) ... Removing python3-brotli (1.1.0-2+b3) ... Removing python3-chardet (5.2.0+dfsg-1) ... Removing python3-charset-normalizer (3.3.2-1) ... Removing python3-cycler (0.11.0-1) ... Removing python3-dateutil (2.8.2-3) ... Removing python3-decorator (5.1.1-5) ... Removing python3-idna (3.6-2) ... Removing python3-kiwisolver (1.4.4-1+b2) ... Removing python3-lib2to3 (3.11.5-1) ... Removing python3-lz4 (4.0.2+dfsg-1+b3) ... Removing python3-sympy (1.12-7) ... Removing python3-mpmath (1.2.1-2) ... Removing python3-orderedset (2.0.3+ds1-2) ... Removing python3-packaging (23.2-1) ... Removing python3-pint (0.19.2-1) ... Removing python3-pkg-resources (68.1.2-2) ... Removing python3-procrunner (2.3.3-1) ... Removing python3-pyparsing (3.1.1-1) ... Removing python3-pyqt5.sip (12.13.0-1+b1) ... Removing python3-urllib3 (1.26.18-2) ... Removing python3-six (1.16.0-4) ... Removing python3-tz (2024.1-2) ... Removing readline-common (8.2-3.1) ... Removing rpcsvc-proto (1.4.3-1) ... Removing systemd-dev (255.4-1) ... Removing unicode-data (15.1.0-1) ... Removing x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing xkb-data (2.41-2) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing libx11-6:amd64 (2:1.8.7-1) ... Removing libx11-data (2:1.8.7-1) ... Processing triggers for libc-bin (2.37-15.1) ... W: --force-yes is deprecated, use one of the options starting with --allow instead. 3m34.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', '-y', '--no-install-recommends', '--force-yes', 'install', 'libssl3:amd64=3.1.5-1', 'adduser-', 'adwaita-icon-theme-', 'at-spi2-common-', 'blt-', 'ca-certificates-', 'dbus-', 'dbus-bin-', 'dbus-daemon-', 'dbus-session-bus-common-', 'dbus-system-bus-common-', 'dbus-user-session-', 'dconf-gsettings-backend:amd64-', 'dconf-service-', 'dmsetup-', 'fontconfig-', 'fontconfig-config-', 'fonts-dejavu-core-', 'fonts-dejavu-mono-', 'fonts-font-awesome-', 'fonts-lato-', 'fonts-lyx-', 'gcc-13-base:amd64-', 'gtk-update-icon-cache-', 'hicolor-icon-theme-', 'libaec0:amd64-', 'libann-cctbx-dev-', 'libann-cctbx0-', 'libantlr3c-3.4-0:amd64-', 'libapparmor1:amd64-', 'libargon2-1:amd64-', 'libasan8:amd64-', 'libatk-bridge2.0-0:amd64-', 'libatk1.0-0:amd64-', 'libatomic1:amd64-', 'libatspi2.0-0:amd64-', 'libavahi-client3:amd64-', 'libavahi-common-data:amd64-', 'libavahi-common3:amd64-', 'libblas3:amd64-', 'libboost-numpy1.83.0-', 'libboost-python-dev-', 'libboost-python1.83-dev-', 'libboost-python1.83.0-', 'libboost-thread1.83.0:amd64-', 'libboost1.83-dev:amd64-', 'libbrotli1:amd64-', 'libbsd0:amd64-', 'libc-dev-bin-', 'libc6-dev:amd64-', 'libcairo-gobject2:amd64-', 'libcairo2:amd64-', 'libcbf1t64:amd64-', 'libccp4-data-', 'libccp4-dev:amd64-', 'libccp4c0:amd64-', 'libccp4f0:amd64-', 'libcctbx-dev-', 'libcctbx0-', 'libcloudproviders0:amd64-', 'libcolord2:amd64-', 'libcrypt-dev:amd64-', 'libcryptsetup12:amd64-', 'libcups2:amd64-', 'libcurl3-gnutls:amd64-', 'libcurl4:amd64-', 'libdatrie1:amd64-', 'libdbus-1-3:amd64-', 'libdconf1:amd64-', 'libdeflate0:amd64-', 'libdevmapper1.02.1:amd64-', 'libdouble-conversion3:amd64-', 'libdrm-amdgpu1:amd64-', 'libdrm-common-', 'libdrm-intel1:amd64-', 'libdrm-nouveau2:amd64-', 'libdrm-radeon1:amd64-', 'libdrm2:amd64-', 'libedit2:amd64-', 'libegl-mesa0:amd64-', 'libegl1:amd64-', 'libelf1t64:amd64-', 'libepoxy0:amd64-', 'libevdev2:amd64-', 'libexpat1:amd64-', 'libexpat1-dev:amd64-', 'libfdisk1:amd64-', 'libfontconfig1:amd64-', 'libfreetype6:amd64-', 'libfribidi0:amd64-', 'libgbm1:amd64-', 'libgcc-13-dev:amd64-', 'libgdk-pixbuf-2.0-0:amd64-', 'libgdk-pixbuf2.0-common-', 'libgfortran5:amd64-', 'libgl1:amd64-', 'libgl1-mesa-dri:amd64-', 'libglapi-mesa:amd64-', 'libglew2.2:amd64-', 'libglib2.0-0t64:amd64-', 'libglu1-mesa:amd64-', 'libglvnd0:amd64-', 'libglx-mesa0:amd64-', 'libglx0:amd64-', 'libgomp1:amd64-', 'libgraphite2-3:amd64-', 'libgssapi-krb5-2:amd64-', 'libgtk-3-0:amd64-', 'libgtk-3-common-', 'libgudev-1.0-0:amd64-', 'libharfbuzz0b:amd64-', 'libhdf5-103-1t64:amd64-', 'libhdf5-hl-100:amd64-', 'libhwasan0:amd64-', 'libice6:amd64-', 'libicu72:amd64-', 'libimagequant0:amd64-', 'libinput-bin-', 'libinput10:amd64-', 'libitm1:amd64-', 'libjbig0:amd64-', 'libjpeg62-turbo:amd64-', 'libjs-jquery-', 'libjs-jquery-ui-', 'libjs-sphinxdoc-', 'libjs-underscore-', 'libjson-c5:amd64-', 'libk5crypto3:amd64-', 'libkeyutils1:amd64-', 'libkmod2:amd64-', 'libkrb5-3:amd64-', 'libkrb5support0:amd64-', 'liblapack3:amd64-', 'liblbfgsb0:amd64-', 'liblcms2-2:amd64-', 'libldap-2.5-0:amd64-', 'liblerc4:amd64-', 'libllvm17:amd64-', 'liblsan0:amd64-', 'liblzf1:amd64-', 'libmd4c0:amd64-', 'libmmdb2-0:amd64-', 'libmtdev1:amd64-', 'libncursesw6:amd64-', 'libnetcdf19:amd64-', 'libnghttp2-14:amd64-', 'libnotify4:amd64-', 'libnsl2:amd64-', 'libopengl0:amd64-', 'libopenjp2-7:amd64-', 'libpam-systemd:amd64-', 'libpango-1.0-0:amd64-', 'libpangocairo-1.0-0:amd64-', 'libpangoft2-1.0-0:amd64-', 'libpciaccess0:amd64-', 'libpcre2-16-0:amd64-', 'libpcre2-32-0:amd64-', 'libpixman-1-0:amd64-', 'libpng16-16:amd64-', 'libproc2-0:amd64-', 'libpsl5:amd64-', 'libpython3-dev:amd64-', 'libpython3-stdlib:amd64-', 'libpython3.11-dev:amd64-', 'libpython3.11-minimal:amd64-', 'libpython3.11-stdlib:amd64-', 'libpython3.11t64:amd64-', 'libpython3.12-minimal:amd64-', 'libpython3.12-stdlib:amd64-', 'libqhull-r8.0:amd64-', 'libqt5core5a:amd64-', 'libqt5dbus5:amd64-', 'libqt5designer5:amd64-', 'libqt5gui5:amd64-', 'libqt5help5:amd64-', 'libqt5network5:amd64-', 'libqt5opengl5:amd64-', 'libqt5printsupport5:amd64-', 'libqt5sql5:amd64-', 'libqt5test5:amd64-', 'libqt5widgets5:amd64-', 'libqt5xml5:amd64-', 'libquadmath0:amd64-', 'libraqm0:amd64-', 'libreadline8t64:amd64-', 'librtmp1:amd64-', 'libsasl2-2:amd64-', 'libsasl2-modules-db:amd64-', 'libsensors-config-', 'libsensors5:amd64-', 'libsharpyuv0:amd64-', 'libsm6:amd64-', 'libsqlite3-0:amd64-', 'libssh2-1:amd64-', 'libssl3t64:amd64-', 'libssm2:amd64-', 'libstdc++-13-dev:amd64-', 'libsystemd-shared:amd64-', 'libsz2:amd64-', 'libtcl8.6:amd64-', 'libthai-data-', 'libthai0:amd64-', 'libtiff6:amd64-', 'libtirpc-common-', 'libtirpc3:amd64-', 'libtk8.6:amd64-', 'libtsan2:amd64-', 'libubsan1:amd64-', 'libvulkan1:amd64-', 'libwacom-common-', 'libwacom9:amd64-', 'libwayland-client0:amd64-', 'libwayland-cursor0:amd64-', 'libwayland-egl1:amd64-', 'libwayland-server0:amd64-', 'libwebp7:amd64-', 'libwebpdemux2:amd64-', 'libwebpmux3:amd64-', 'libwxbase3.2-1:amd64-', 'libwxgtk-gl3.2-1:amd64-', 'libwxgtk3.2-1:amd64-', 'libx11-6:amd64-', 'libx11-data-', 'libx11-xcb1:amd64-', 'libxau6:amd64-', 'libxcb-dri2-0:amd64-', 'libxcb-dri3-0:amd64-', 'libxcb-glx0:amd64-', 'libxcb-icccm4:amd64-', 'libxcb-image0:amd64-', 'libxcb-keysyms1:amd64-', 'libxcb-present0:amd64-', 'libxcb-randr0:amd64-', 'libxcb-render-util0:amd64-', 'libxcb-render0:amd64-', 'libxcb-shape0:amd64-', 'libxcb-shm0:amd64-', 'libxcb-sync1:amd64-', 'libxcb-util1:amd64-', 'libxcb-xfixes0:amd64-', 'libxcb-xinerama0:amd64-', 'libxcb-xinput0:amd64-', 'libxcb-xkb1:amd64-', 'libxcb1:amd64-', 'libxcomposite1:amd64-', 'libxcursor1:amd64-', 'libxdamage1:amd64-', 'libxdmcp6:amd64-', 'libxext6:amd64-', 'libxfixes3:amd64-', 'libxft2:amd64-', 'libxi6:amd64-', 'libxinerama1:amd64-', 'libxkbcommon-x11-0:amd64-', 'libxkbcommon0:amd64-', 'libxml2:amd64-', 'libxrandr2:amd64-', 'libxrender1:amd64-', 'libxshmfence1:amd64-', 'libxslt1.1:amd64-', 'libxss1:amd64-', 'libxtst6:amd64-', 'libxxf86vm1:amd64-', 'libz3-4:amd64-', 'linux-libc-dev-', 'media-types-', 'netbase-', 'openssl-', 'procps-', 'pymol-data-', 'python-matplotlib-data-', 'python3-', 'python3-appdirs-', 'python3-attr-', 'python3-brotli-', 'python3-certifi-', 'python3-chardet-', 'python3-charset-normalizer-', 'python3-contourpy-', 'python3-cycler-', 'python3-dateutil-', 'python3-decorator-', 'python3-dev-', 'python3-distutils-', 'python3-fonttools-', 'python3-fs-', 'python3-h5py-', 'python3-h5py-serial-', 'python3-idna-', 'python3-kiwisolver-', 'python3-lib2to3-', 'python3-lxml:amd64-', 'python3-lz4-', 'python3-matplotlib-', 'python3-minimal-', 'python3-mpmath-', 'python3-mrcfile-', 'python3-numpy-', 'python3-nxmx-', 'python3-opengl-', 'python3-orderedset-', 'python3-packaging-', 'python3-pil:amd64-', 'python3-pil.imagetk:amd64-', 'python3-pint-', 'python3-pkg-resources-', 'python3-procrunner-', 'python3-pycbf-', 'python3-pymol-', 'python3-pyparsing-', 'python3-pyqt5-', 'python3-pyqt5.qtopengl-', 'python3-pyqt5.sip-', 'python3-requests-', 'python3-scipy-', 'python3-six-', 'python3-sympy-', 'python3-tk:amd64-', 'python3-tqdm-', 'python3-tz-', 'python3-ufolib2-', 'python3-unicodedata2-', 'python3-urllib3-', 'python3-wxgtk4.0-', 'python3.11-', 'python3.11-dev-', 'python3.11-minimal-', 'python3.12-', 'python3.12-minimal-', 'readline-common-', 'rpcsvc-proto-', 'shared-mime-info-', 'sphinx-rtd-theme-common-', 'systemd-', 'systemd-dev-', 'systemd-sysv-', 'tk8.6-blt2.5-', 'unicode-data-', 'x11-common-', 'xkb-data-', 'zlib1g-dev:amd64-', 'python3-cctbx-'] 3m34.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', '-y', '--no-install-recommends', '--reinstall', 'install', 'libssl3:amd64=3.1.5-1'] 3m35.8s DUMP: Reading package lists... Building dependency tree... Reading state information... debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 0 newly installed, 1 reinstalled, 0 to remove and 0 not upgraded. Need to get 0 B/2063 kB of archives. After this operation, 0 B of additional disk space will be used. (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 ... 5318 files and directories currently installed.) Preparing to unpack .../libssl3_3.1.5-1_amd64.deb ... Unpacking libssl3:amd64 (3.1.5-1) over (3.1.5-1) ... Setting up libssl3:amd64 (3.1.5-1) ... Processing triggers for libc-bin (2.37-15.1) ... 3m35.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', '-y', '--no-install-recommends', '--reinstall', 'install', 'libssl3:amd64=3.1.5-1'] 3m35.8s INFO: Running scripts post_remove 3m35.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_remove_exceptions'] 3m35.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_remove_exceptions'] 3m35.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg', '--purge', 'adduser', 'adwaita-icon-theme', 'at-spi2-common', 'blt', 'ca-certificates', 'dbus', 'dbus-bin', 'dbus-daemon', 'dbus-session-bus-common', 'dbus-system-bus-common', 'dbus-user-session', 'dconf-gsettings-backend:amd64', 'dconf-service', 'dmsetup', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-lato', 'fonts-lyx', 'gcc-13-base:amd64', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'libaec0:amd64', 'libann-cctbx-dev', 'libann-cctbx0', 'libantlr3c-3.4-0:amd64', 'libapparmor1:amd64', 'libargon2-1:amd64', 'libasan8:amd64', 'libatk-bridge2.0-0:amd64', 'libatk1.0-0:amd64', 'libatomic1:amd64', 'libatspi2.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libblas3:amd64', 'libboost-numpy1.83.0', 'libboost-python-dev', 'libboost-python1.83-dev', 'libboost-python1.83.0', 'libboost-thread1.83.0:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcbf1t64:amd64', 'libccp4-data', 'libccp4-dev:amd64', 'libccp4c0:amd64', 'libccp4f0:amd64', 'libcctbx-dev', 'libcctbx0', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcrypt-dev:amd64', 'libcryptsetup12:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdeflate0:amd64', 'libdevmapper1.02.1:amd64', 'libdouble-conversion3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libegl-mesa0:amd64', 'libegl1:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'libevdev2:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfdisk1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgbm1:amd64', 'libgcc-13-dev:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglew2.2:amd64', 'libglib2.0-0t64:amd64', 'libglu1-mesa:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0:amd64', 'libgtk-3-common', 'libgudev-1.0-0:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-hl-100:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libimagequant0:amd64', 'libinput-bin', 'libinput10:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-sphinxdoc', 'libjs-underscore', 'libjson-c5:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmod2:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm17:amd64', 'liblsan0:amd64', 'liblzf1:amd64', 'libmd4c0:amd64', 'libmmdb2-0:amd64', 'libmtdev1:amd64', 'libncursesw6:amd64', 'libnetcdf19:amd64', 'libnghttp2-14:amd64', 'libnotify4:amd64', 'libnsl2:amd64', 'libopengl0:amd64', 'libopenjp2-7:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcre2-16-0:amd64', 'libpcre2-32-0:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libproc2-0:amd64', 'libpsl5:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.11t64:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libqhull-r8.0:amd64', 'libqt5core5a:amd64', 'libqt5dbus5:amd64', 'libqt5designer5:amd64', 'libqt5gui5:amd64', 'libqt5help5:amd64', 'libqt5network5:amd64', 'libqt5opengl5:amd64', 'libqt5printsupport5:amd64', 'libqt5sql5:amd64', 'libqt5test5:amd64', 'libqt5widgets5:amd64', 'libqt5xml5:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3t64:amd64', 'libssm2:amd64', 'libstdc++-13-dev:amd64', 'libsystemd-shared:amd64', 'libsz2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libvulkan1:amd64', 'libwacom-common', 'libwacom9:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwayland-server0:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libwxbase3.2-1:amd64', 'libwxgtk-gl3.2-1:amd64', 'libwxgtk3.2-1:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-icccm4:amd64', 'libxcb-image0:amd64', 'libxcb-keysyms1:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render-util0:amd64', 'libxcb-render0:amd64', 'libxcb-shape0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-util1:amd64', 'libxcb-xfixes0:amd64', 'libxcb-xinerama0:amd64', 'libxcb-xinput0:amd64', 'libxcb-xkb1:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon-x11-0:amd64', 'libxkbcommon0:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libz3-4:amd64', 'linux-libc-dev', 'media-types', 'netbase', 'openssl', 'procps', 'pymol-data', 'python-matplotlib-data', 'python3', 'python3-appdirs', 'python3-attr', 'python3-brotli', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dev', 'python3-distutils', 'python3-fonttools', 'python3-fs', 'python3-h5py', 'python3-h5py-serial', 'python3-idna', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-minimal', 'python3-mpmath', 'python3-mrcfile', 'python3-numpy', 'python3-nxmx', 'python3-opengl', 'python3-orderedset', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pint', 'python3-pkg-resources', 'python3-procrunner', 'python3-pycbf', 'python3-pymol', 'python3-pyparsing', 'python3-pyqt5', 'python3-pyqt5.qtopengl', 'python3-pyqt5.sip', 'python3-requests', 'python3-scipy', 'python3-six', 'python3-sympy', 'python3-tk:amd64', 'python3-tqdm', 'python3-tz', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wxgtk4.0', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'python3.12', 'python3.12-minimal', 'readline-common', 'rpcsvc-proto', 'shared-mime-info', 'sphinx-rtd-theme-common', 'systemd', 'systemd-dev', 'systemd-sysv', 'tk8.6-blt2.5', 'unicode-data', 'x11-common', 'xkb-data', 'zlib1g-dev:amd64'] 3m36.5s DUMP: (Reading database ... 5317 files and directories currently installed.) Purging configuration files for adduser (3.137) ... Purging configuration files for adwaita-icon-theme (46~beta-4) ... dpkg: warning: ignoring request to remove at-spi2-common which isn't installed dpkg: warning: ignoring request to remove blt which isn't installed Purging configuration files for ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for dbus (1.14.10-4) ... rmdir: failed to remove '/var/run/dbus': Directory not empty rmdir: failed to remove '/var/lib/dbus': Directory not empty dpkg: warning: while removing dbus, directory '/var/lib/dbus' not empty so not removed dpkg: warning: ignoring request to remove dbus-bin which isn't installed Purging configuration files for dbus-daemon (1.14.10-4) ... dpkg: warning: ignoring request to remove dbus-session-bus-common which isn't installed dpkg: warning: ignoring request to remove dbus-system-bus-common which isn't installed Purging configuration files for dbus-user-session (1.14.10-4) ... dpkg: warning: ignoring request to remove dconf-gsettings-backend which isn't installed dpkg: warning: ignoring request to remove dconf-service which isn't installed dpkg: warning: ignoring request to remove dmsetup which isn't installed Purging configuration files for fontconfig (2.15.0-1) ... Purging configuration files for fontconfig-config (2.15.0-1) ... Purging configuration files for fonts-dejavu-core (2.37-8) ... Purging configuration files for fonts-dejavu-mono (2.37-8) ... Purging configuration files for fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... dpkg: warning: ignoring request to remove fonts-lato which isn't installed dpkg: warning: ignoring request to remove fonts-lyx which isn't installed dpkg: warning: ignoring request to remove gcc-13-base which isn't installed dpkg: warning: ignoring request to remove gtk-update-icon-cache which isn't installed dpkg: warning: ignoring request to remove hicolor-icon-theme which isn't installed dpkg: warning: ignoring request to remove libaec0 which isn't installed dpkg: warning: ignoring request to remove libann-cctbx-dev which isn't installed dpkg: warning: ignoring request to remove libann-cctbx0 which isn't installed dpkg: warning: ignoring request to remove libantlr3c-3.4-0 which isn't installed dpkg: warning: ignoring request to remove libapparmor1 which isn't installed dpkg: warning: ignoring request to remove libargon2-1 which isn't installed dpkg: warning: ignoring request to remove libasan8 which isn't installed dpkg: warning: ignoring request to remove libatk-bridge2.0-0 which isn't installed dpkg: warning: ignoring request to remove libatk1.0-0 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libatspi2.0-0 which isn't installed dpkg: warning: ignoring request to remove libavahi-client3 which isn't installed dpkg: warning: ignoring request to remove libavahi-common-data which isn't installed dpkg: warning: ignoring request to remove libavahi-common3 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libboost-numpy1.83.0 which isn't installed dpkg: warning: ignoring request to remove libboost-python-dev which isn't installed dpkg: warning: ignoring request to remove libboost-python1.83-dev which isn't installed dpkg: warning: ignoring request to remove libboost-python1.83.0 which isn't installed dpkg: warning: ignoring request to remove libboost-thread1.83.0 which isn't installed dpkg: warning: ignoring request to remove libboost1.83-dev which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcairo-gobject2 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcbf1t64 which isn't installed dpkg: warning: ignoring request to remove libccp4-data which isn't installed dpkg: warning: ignoring request to remove libccp4-dev which isn't installed dpkg: warning: ignoring request to remove libccp4c0 which isn't installed dpkg: warning: ignoring request to remove libccp4f0 which isn't installed dpkg: warning: ignoring request to remove libcctbx-dev which isn't installed dpkg: warning: ignoring request to remove libcctbx0 which isn't installed dpkg: warning: ignoring request to remove libcloudproviders0 which isn't installed dpkg: warning: ignoring request to remove libcolord2 which isn't installed Purging configuration files for libcrypt-dev:amd64 (1:4.4.36-4) ... dpkg: warning: ignoring request to remove libcryptsetup12 which isn't installed dpkg: warning: ignoring request to remove libcups2 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libcurl4 which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdbus-1-3 which isn't installed dpkg: warning: ignoring request to remove libdconf1 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libdevmapper1.02.1 which isn't installed dpkg: warning: ignoring request to remove libdouble-conversion3 which isn't installed dpkg: warning: ignoring request to remove libdrm-amdgpu1 which isn't installed dpkg: warning: ignoring request to remove libdrm-common which isn't installed dpkg: warning: ignoring request to remove libdrm-intel1 which isn't installed dpkg: warning: ignoring request to remove libdrm-nouveau2 which isn't installed dpkg: warning: ignoring request to remove libdrm-radeon1 which isn't installed dpkg: warning: ignoring request to remove libdrm2 which isn't installed dpkg: warning: ignoring request to remove libedit2 which isn't installed dpkg: warning: ignoring request to remove libegl-mesa0 which isn't installed dpkg: warning: ignoring request to remove libegl1 which isn't installed dpkg: warning: ignoring request to remove libelf1t64 which isn't installed dpkg: warning: ignoring request to remove libepoxy0 which isn't installed dpkg: warning: ignoring request to remove libevdev2 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libexpat1-dev which isn't installed dpkg: warning: ignoring request to remove libfdisk1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgbm1 which isn't installed dpkg: warning: ignoring request to remove libgcc-13-dev which isn't installed Purging configuration files for libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-3+b1) ... dpkg: warning: ignoring request to remove libgdk-pixbuf2.0-common which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgl1 which isn't installed Purging configuration files for libgl1-mesa-dri:amd64 (24.0.2-1) ... dpkg: warning: ignoring request to remove libglapi-mesa which isn't installed dpkg: warning: ignoring request to remove libglew2.2 which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.78.4-2.1) ... dpkg: warning: ignoring request to remove libglu1-mesa which isn't installed dpkg: warning: ignoring request to remove libglvnd0 which isn't installed dpkg: warning: ignoring request to remove libglx-mesa0 which isn't installed dpkg: warning: ignoring request to remove libglx0 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-5+b1) ... Purging configuration files for libgtk-3-0:amd64 (3.24.41-1) ... Purging configuration files for libgtk-3-common (3.24.41-1.1) ... dpkg: warning: ignoring request to remove libgudev-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhdf5-103-1t64 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-100 which isn't installed dpkg: warning: ignoring request to remove libhwasan0 which isn't installed dpkg: warning: ignoring request to remove libice6 which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libinput-bin which isn't installed dpkg: warning: ignoring request to remove libinput10 which isn't installed dpkg: warning: ignoring request to remove libitm1 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed Purging configuration files for libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... dpkg: warning: ignoring request to remove libjs-jquery-ui which isn't installed dpkg: warning: ignoring request to remove libjs-sphinxdoc which isn't installed dpkg: warning: ignoring request to remove libjs-underscore which isn't installed dpkg: warning: ignoring request to remove libjson-c5 which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkmod2 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblbfgsb0 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove liblerc4 which isn't installed dpkg: warning: ignoring request to remove libllvm17 which isn't installed dpkg: warning: ignoring request to remove liblsan0 which isn't installed dpkg: warning: ignoring request to remove liblzf1 which isn't installed dpkg: warning: ignoring request to remove libmd4c0 which isn't installed dpkg: warning: ignoring request to remove libmmdb2-0 which isn't installed dpkg: warning: ignoring request to remove libmtdev1 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnetcdf19 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnotify4 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libopengl0 which isn't installed dpkg: warning: ignoring request to remove libopenjp2-7 which isn't installed dpkg: warning: ignoring request to remove libpam-systemd which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpciaccess0 which isn't installed dpkg: warning: ignoring request to remove libpcre2-16-0 which isn't installed dpkg: warning: ignoring request to remove libpcre2-32-0 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libproc2-0 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython3-dev which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython3.11-dev which isn't installed Purging configuration files for libpython3.11-minimal:amd64 (3.11.8-2) ... dpkg: warning: ignoring request to remove libpython3.11-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython3.11t64 which isn't installed Purging configuration files for libpython3.12-minimal:amd64 (3.12.2-3) ... dpkg: warning: ignoring request to remove libpython3.12-stdlib which isn't installed dpkg: warning: ignoring request to remove libqhull-r8.0 which isn't installed dpkg: warning: ignoring request to remove libqt5core5a which isn't installed dpkg: warning: ignoring request to remove libqt5dbus5 which isn't installed dpkg: warning: ignoring request to remove libqt5designer5 which isn't installed dpkg: warning: ignoring request to remove libqt5gui5 which isn't installed dpkg: warning: ignoring request to remove libqt5help5 which isn't installed dpkg: warning: ignoring request to remove libqt5network5 which isn't installed dpkg: warning: ignoring request to remove libqt5opengl5 which isn't installed dpkg: warning: ignoring request to remove libqt5printsupport5 which isn't installed dpkg: warning: ignoring request to remove libqt5sql5 which isn't installed dpkg: warning: ignoring request to remove libqt5test5 which isn't installed dpkg: warning: ignoring request to remove libqt5widgets5 which isn't installed dpkg: warning: ignoring request to remove libqt5xml5 which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libraqm0 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-3.1) ... dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed Purging configuration files for libsensors-config (1:3.6.0-9) ... dpkg: warning: ignoring request to remove libsensors5 which isn't installed dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsm6 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libssl3t64 which isn't installed dpkg: warning: ignoring request to remove libssm2 which isn't installed dpkg: warning: ignoring request to remove libstdc++-13-dev which isn't installed dpkg: warning: ignoring request to remove libsystemd-shared which isn't installed dpkg: warning: ignoring request to remove libsz2 which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed Purging configuration files for libtirpc-common (1.3.4+ds-1.1) ... dpkg: warning: ignoring request to remove libtirpc3 which isn't installed dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libtsan2 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed dpkg: warning: ignoring request to remove libvulkan1 which isn't installed dpkg: warning: ignoring request to remove libwacom-common which isn't installed dpkg: warning: ignoring request to remove libwacom9 which isn't installed dpkg: warning: ignoring request to remove libwayland-client0 which isn't installed dpkg: warning: ignoring request to remove libwayland-cursor0 which isn't installed dpkg: warning: ignoring request to remove libwayland-egl1 which isn't installed dpkg: warning: ignoring request to remove libwayland-server0 which isn't installed dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libwxbase3.2-1 which isn't installed dpkg: warning: ignoring request to remove libwxgtk-gl3.2-1 which isn't installed dpkg: warning: ignoring request to remove libwxgtk3.2-1 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libx11-xcb1 which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-dri2-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-dri3-0 which isn't installed dpkg: warning: ignoring request to remove libxcb-glx0 which isn't installed dpkg: warning: ignoring request to remove libxcb-icccm4 which isn't installed dpkg: warning: ignoring request to remove libxcb-image0 which isn't installed dpkg: warning: ignoring request to remove libxcb-keysyms1 which isn't installed dpkg: warning: ignoring request to remove libxcb-present0 which isn't installed dpkg: warning: ignoring request to remove libxcb-randr0 which isn't installed dpkg: warning: ignoring request to remove libxcb-render-util0 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shape0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb-sync1 which isn't installed dpkg: warning: ignoring request to remove libxcb-util1 which isn't installed dpkg: warning: ignoring request to remove libxcb-xfixes0 which isn't installed dpkg: warning: ignoring request to remove libxcb-xinerama0 which isn't installed dpkg: warning: ignoring request to remove libxcb-xinput0 which isn't installed dpkg: warning: ignoring request to remove libxcb-xkb1 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxcomposite1 which isn't installed dpkg: warning: ignoring request to remove libxcursor1 which isn't installed dpkg: warning: ignoring request to remove libxdamage1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxfixes3 which isn't installed dpkg: warning: ignoring request to remove libxft2 which isn't installed dpkg: warning: ignoring request to remove libxi6 which isn't installed dpkg: warning: ignoring request to remove libxinerama1 which isn't installed dpkg: warning: ignoring request to remove libxkbcommon-x11-0 which isn't installed dpkg: warning: ignoring request to remove libxkbcommon0 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxrandr2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxshmfence1 which isn't installed dpkg: warning: ignoring request to remove libxslt1.1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libxtst6 which isn't installed dpkg: warning: ignoring request to remove libxxf86vm1 which isn't installed dpkg: warning: ignoring request to remove libz3-4 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed Purging configuration files for media-types (10.1.0) ... Purging configuration files for netbase (6.4) ... Purging configuration files for openssl (3.1.5-1.1) ... Purging configuration files for procps (2:4.0.4-4) ... dpkg: warning: ignoring request to remove pymol-data which isn't installed Purging configuration files for python-matplotlib-data (3.6.3-1) ... Purging configuration files for python3 (3.11.6-1) ... dpkg: warning: ignoring request to remove python3-appdirs which isn't installed dpkg: warning: ignoring request to remove python3-attr which isn't installed dpkg: warning: ignoring request to remove python3-brotli which isn't installed dpkg: warning: ignoring request to remove python3-certifi which isn't installed dpkg: warning: ignoring request to remove python3-chardet which isn't installed dpkg: warning: ignoring request to remove python3-charset-normalizer which isn't installed dpkg: warning: ignoring request to remove python3-contourpy which isn't installed dpkg: warning: ignoring request to remove python3-cycler which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-decorator which isn't installed dpkg: warning: ignoring request to remove python3-dev which isn't installed dpkg: warning: ignoring request to remove python3-distutils which isn't installed dpkg: warning: ignoring request to remove python3-fonttools which isn't installed dpkg: warning: ignoring request to remove python3-fs which isn't installed dpkg: warning: ignoring request to remove python3-h5py which isn't installed dpkg: warning: ignoring request to remove python3-h5py-serial which isn't installed dpkg: warning: ignoring request to remove python3-idna which isn't installed dpkg: warning: ignoring request to remove python3-kiwisolver which isn't installed dpkg: warning: ignoring request to remove python3-lib2to3 which isn't installed dpkg: warning: ignoring request to remove python3-lxml which isn't installed dpkg: warning: ignoring request to remove python3-lz4 which isn't installed dpkg: warning: ignoring request to remove python3-matplotlib which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-mpmath which isn't installed dpkg: warning: ignoring request to remove python3-mrcfile which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-nxmx which isn't installed dpkg: warning: ignoring request to remove python3-opengl which isn't installed dpkg: warning: ignoring request to remove python3-orderedset which isn't installed dpkg: warning: ignoring request to remove python3-packaging which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-pil.imagetk which isn't installed dpkg: warning: ignoring request to remove python3-pint which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-procrunner which isn't installed dpkg: warning: ignoring request to remove python3-pycbf which isn't installed dpkg: warning: ignoring request to remove python3-pymol which isn't installed dpkg: warning: ignoring request to remove python3-pyparsing which isn't installed dpkg: warning: ignoring request to remove python3-pyqt5 which isn't installed dpkg: warning: ignoring request to remove python3-pyqt5.qtopengl which isn't installed dpkg: warning: ignoring request to remove python3-pyqt5.sip which isn't installed dpkg: warning: ignoring request to remove python3-requests which isn't installed dpkg: warning: ignoring request to remove python3-scipy which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed Purging configuration files for python3-sympy (1.12-7) ... dpkg: warning: ignoring request to remove python3-tk which isn't installed dpkg: warning: ignoring request to remove python3-tqdm which isn't installed dpkg: warning: ignoring request to remove python3-tz which isn't installed dpkg: warning: ignoring request to remove python3-ufolib2 which isn't installed dpkg: warning: ignoring request to remove python3-unicodedata2 which isn't installed dpkg: warning: ignoring request to remove python3-urllib3 which isn't installed dpkg: warning: ignoring request to remove python3-wxgtk4.0 which isn't installed dpkg: warning: ignoring request to remove python3.11 which isn't installed dpkg: warning: ignoring request to remove python3.11-dev which isn't installed Purging configuration files for python3.11-minimal (3.11.8-2) ... dpkg: warning: ignoring request to remove python3.12 which isn't installed Purging configuration files for python3.12-minimal (3.12.2-3) ... Purging configuration files for readline-common (8.2-3.1) ... dpkg: warning: ignoring request to remove rpcsvc-proto which isn't installed Purging configuration files for shared-mime-info (2.4-1) ... dpkg: warning: ignoring request to remove sphinx-rtd-theme-common which isn't installed Purging configuration files for systemd (255.4-1) ... dpkg: warning: ignoring request to remove systemd-dev which isn't installed dpkg: warning: ignoring request to remove systemd-sysv which isn't installed dpkg: warning: ignoring request to remove tk8.6-blt2.5 which isn't installed dpkg: warning: ignoring request to remove unicode-data which isn't installed Purging configuration files for x11-common (1:7.7+23) ... dpkg: warning: ignoring request to remove xkb-data which isn't installed dpkg: warning: ignoring request to remove zlib1g-dev which isn't installed 3m36.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg', '--purge', 'adduser', 'adwaita-icon-theme', 'at-spi2-common', 'blt', 'ca-certificates', 'dbus', 'dbus-bin', 'dbus-daemon', 'dbus-session-bus-common', 'dbus-system-bus-common', 'dbus-user-session', 'dconf-gsettings-backend:amd64', 'dconf-service', 'dmsetup', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-font-awesome', 'fonts-lato', 'fonts-lyx', 'gcc-13-base:amd64', 'gtk-update-icon-cache', 'hicolor-icon-theme', 'libaec0:amd64', 'libann-cctbx-dev', 'libann-cctbx0', 'libantlr3c-3.4-0:amd64', 'libapparmor1:amd64', 'libargon2-1:amd64', 'libasan8:amd64', 'libatk-bridge2.0-0:amd64', 'libatk1.0-0:amd64', 'libatomic1:amd64', 'libatspi2.0-0:amd64', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libblas3:amd64', 'libboost-numpy1.83.0', 'libboost-python-dev', 'libboost-python1.83-dev', 'libboost-python1.83.0', 'libboost-thread1.83.0:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcbf1t64:amd64', 'libccp4-data', 'libccp4-dev:amd64', 'libccp4c0:amd64', 'libccp4f0:amd64', 'libcctbx-dev', 'libcctbx0', 'libcloudproviders0:amd64', 'libcolord2:amd64', 'libcrypt-dev:amd64', 'libcryptsetup12:amd64', 'libcups2:amd64', 'libcurl3-gnutls:amd64', 'libcurl4:amd64', 'libdatrie1:amd64', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdeflate0:amd64', 'libdevmapper1.02.1:amd64', 'libdouble-conversion3:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libegl-mesa0:amd64', 'libegl1:amd64', 'libelf1t64:amd64', 'libepoxy0:amd64', 'libevdev2:amd64', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libfdisk1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgbm1:amd64', 'libgcc-13-dev:amd64', 'libgdk-pixbuf-2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgfortran5:amd64', 'libgl1:amd64', 'libgl1-mesa-dri:amd64', 'libglapi-mesa:amd64', 'libglew2.2:amd64', 'libglib2.0-0t64:amd64', 'libglu1-mesa:amd64', 'libglvnd0:amd64', 'libglx-mesa0:amd64', 'libglx0:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libgtk-3-0:amd64', 'libgtk-3-common', 'libgudev-1.0-0:amd64', 'libharfbuzz0b:amd64', 'libhdf5-103-1t64:amd64', 'libhdf5-hl-100:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu72:amd64', 'libimagequant0:amd64', 'libinput-bin', 'libinput10:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-sphinxdoc', 'libjs-underscore', 'libjson-c5:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmod2:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libllvm17:amd64', 'liblsan0:amd64', 'liblzf1:amd64', 'libmd4c0:amd64', 'libmmdb2-0:amd64', 'libmtdev1:amd64', 'libncursesw6:amd64', 'libnetcdf19:amd64', 'libnghttp2-14:amd64', 'libnotify4:amd64', 'libnsl2:amd64', 'libopengl0:amd64', 'libopenjp2-7:amd64', 'libpam-systemd:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpciaccess0:amd64', 'libpcre2-16-0:amd64', 'libpcre2-32-0:amd64', 'libpixman-1-0:amd64', 'libpng16-16:amd64', 'libproc2-0:amd64', 'libpsl5:amd64', 'libpython3-dev:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-dev:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.11t64:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libqhull-r8.0:amd64', 'libqt5core5a:amd64', 'libqt5dbus5:amd64', 'libqt5designer5:amd64', 'libqt5gui5:amd64', 'libqt5help5:amd64', 'libqt5network5:amd64', 'libqt5opengl5:amd64', 'libqt5printsupport5:amd64', 'libqt5sql5:amd64', 'libqt5test5:amd64', 'libqt5widgets5:amd64', 'libqt5xml5:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsensors-config', 'libsensors5:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3t64:amd64', 'libssm2:amd64', 'libstdc++-13-dev:amd64', 'libsystemd-shared:amd64', 'libsz2:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libtk8.6:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libvulkan1:amd64', 'libwacom-common', 'libwacom9:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1:amd64', 'libwayland-server0:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libwxbase3.2-1:amd64', 'libwxgtk-gl3.2-1:amd64', 'libwxgtk3.2-1:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-icccm4:amd64', 'libxcb-image0:amd64', 'libxcb-keysyms1:amd64', 'libxcb-present0:amd64', 'libxcb-randr0:amd64', 'libxcb-render-util0:amd64', 'libxcb-render0:amd64', 'libxcb-shape0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-util1:amd64', 'libxcb-xfixes0:amd64', 'libxcb-xinerama0:amd64', 'libxcb-xinput0:amd64', 'libxcb-xkb1:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon-x11-0:amd64', 'libxkbcommon0:amd64', 'libxml2:amd64', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxtst6:amd64', 'libxxf86vm1:amd64', 'libz3-4:amd64', 'linux-libc-dev', 'media-types', 'netbase', 'openssl', 'procps', 'pymol-data', 'python-matplotlib-data', 'python3', 'python3-appdirs', 'python3-attr', 'python3-brotli', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dev', 'python3-distutils', 'python3-fonttools', 'python3-fs', 'python3-h5py', 'python3-h5py-serial', 'python3-idna', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-minimal', 'python3-mpmath', 'python3-mrcfile', 'python3-numpy', 'python3-nxmx', 'python3-opengl', 'python3-orderedset', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pint', 'python3-pkg-resources', 'python3-procrunner', 'python3-pycbf', 'python3-pymol', 'python3-pyparsing', 'python3-pyqt5', 'python3-pyqt5.qtopengl', 'python3-pyqt5.sip', 'python3-requests', 'python3-scipy', 'python3-six', 'python3-sympy', 'python3-tk:amd64', 'python3-tqdm', 'python3-tz', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wxgtk4.0', 'python3.11', 'python3.11-dev', 'python3.11-minimal', 'python3.12', 'python3.12-minimal', 'readline-common', 'rpcsvc-proto', 'shared-mime-info', 'sphinx-rtd-theme-common', 'systemd', 'systemd-dev', 'systemd-sysv', 'tk8.6-blt2.5', 'unicode-data', 'x11-common', 'xkb-data', 'zlib1g-dev:amd64'] 3m36.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg', '--purge', 'python3-cctbx'] 3m36.5s DUMP: dpkg: warning: ignoring request to remove python3-cctbx which isn't installed 3m36.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg', '--purge', 'python3-cctbx'] 3m36.5s INFO: Running scripts post_purge 3m36.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_purge_exceptions'] 3m36.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_purge_exceptions'] 3m36.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg', '--purge', '--pending'] 3m36.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg', '--purge', '--pending'] 3m36.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg', '--remove', '--pending'] 3m36.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg', '--remove', '--pending'] 3m36.5s INFO: Running scripts post_test 3m36.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_test_exceptions'] 3m36.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'tmp/scripts/post_test_exceptions'] 3m36.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 3m36.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 3m37.4s ERROR: WARN: Broken symlinks: /etc/vconsole.conf -> default/keyboard /etc/default/locale -> ../locale.conf 3m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg-divert', '--list'] 3m37.4s DUMP: diversion of /lib/x86_64-linux-gnu/libpam.so.0 to /lib/x86_64-linux-gnu/libpam.so.0.usr-is-merged by libpam0t64 diversion of /lib/x86_64-linux-gnu/libpamc.so.0 to /lib/x86_64-linux-gnu/libpamc.so.0.usr-is-merged by libpam0t64 diversion of /lib/x86_64-linux-gnu/libpam.so.0.85.1 to /lib/x86_64-linux-gnu/libpam.so.0.85.1.usr-is-merged by libpam0t64 local diversion of /bin/sync to /bin/sync.distrib local diversion of /home to /home.distrib diversion of /lib/x86_64-linux-gnu/libpam_misc.so.0 to /lib/x86_64-linux-gnu/libpam_misc.so.0.usr-is-merged by libpam0t64 diversion of /lib/x86_64-linux-gnu/libpam_misc.so.0.82.1 to /lib/x86_64-linux-gnu/libpam_misc.so.0.82.1.usr-is-merged by libpam0t64 diversion of /lib/x86_64-linux-gnu/libpamc.so.0.82.1 to /lib/x86_64-linux-gnu/libpamc.so.0.82.1.usr-is-merged by libpam0t64 3m37.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'dpkg-divert', '--list'] 3m37.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', 'clean'] 3m37.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpddj305og', 'apt-get', 'clean'] 3m37.5s DEBUG: Recording chroot state 3m38.1s INFO: Warning: Package purging left files on system: /etc/default/locale -> ../locale.conf not owned /etc/vconsole.conf -> default/keyboard not owned /root/.ssh/ not owned /var/cache/private/ not owned /var/lib/private/ not owned /var/lib/systemd/coredump/ not owned /var/lib/systemd/ephemeral-trees/ not owned /var/lib/systemd/pstore/ not owned /var/log/private/ not owned 3m38.1s INFO: PASS: Installation and purging test. 3m38.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/shm'] 3m38.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/shm'] 3m38.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/console'] 3m38.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/console'] 3m38.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/ptmx'] 3m38.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/ptmx'] 3m38.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/pts'] 3m38.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/dev/pts'] 3m38.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/proc'] 3m38.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpddj305og/proc'] 3m38.5s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 3m38.6s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpddj305og'] 3m38.6s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpddj305og 3m38.6s INFO: PASS: All tests. 3m38.6s INFO: piuparts run ends. ret=0 End: 2024-03-01 16:22:56 GMT