Start: 2024-11-12 03:59:44 GMT [testing] Package: python-mdtraj-doc Source: mdtraj Version: 1.10.0-3 Installed-Size: 6368 Maintainer: Debichem Team Architecture: all Depends: libjs-mathjax, libjs-sphinxdoc (>= 7.3), sphinx-rtd-theme-common (>= 2.0.0+dfsg) Description: Read, write and analyze MD trajectories in Python (documentation) Multi-Arch: foreign Homepage: https://mdtraj.org/ Description-md5: 1aecee854be94be7118478b094fd2557 Section: doc Priority: optional Filename: pool/main/m/mdtraj/python-mdtraj-doc_1.10.0-3_all.deb Size: 699552 MD5sum: 47118acb45349dfae238a73b54eca0bf SHA256: 515f9d671dfb07ee2023fa067af0d977f62a8928b07d7eabf909c472dd4f2f10 [sid] Package: python-mdtraj-doc Source: mdtraj Version: 1.10.1-2 Installed-Size: 9915 Maintainer: Debichem Team Architecture: all Depends: libjs-mathjax, libjs-sphinxdoc (>= 7.4), sphinx-rtd-theme-common (>= 3.0.1+dfsg) Description: Read, write and analyze MD trajectories in Python (documentation) Multi-Arch: foreign Homepage: https://mdtraj.org/ Description-md5: 1aecee854be94be7118478b094fd2557 Section: doc Priority: optional Filename: pool/main/m/mdtraj/python-mdtraj-doc_1.10.1-2_all.deb Size: 1869904 MD5sum: 4bfd5b368a968eeafcb5ff074bdf6f93 SHA256: 4373874f4c227769c3aa3893342669e2cb7ab3fe2b4cb8b211fd5f12adda65e2 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 --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/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt python-mdtraj-doc=1.10.1-2 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 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --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/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt python-mdtraj-doc=1.10.1-2 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-33-amd64 #1 SMP Debian 5.10.226-1 (2024-10-03) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpk92roqt0 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpk92roqt0 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/proc'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/pts'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/shm'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/shm'] 0m0.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m0.3s DEBUG: Created policy-rc.d and chmodded it. 0m0.3s DEBUG: Created resolv.conf. 0m0.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpk92roqt0/tmp/scripts/ 0m0.3s INFO: Running scripts post_chroot_unpack 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', 'update'] 0m1.6s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [172 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9349 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6246 kB] Fetched 15.8 MB in 1s (17.5 MB/s) Reading package lists... 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', 'update'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: gcc-14-base libaudit-common libaudit1 libdebconfclient0 libgcc-s1 libstdc++6 perl-base tzdata 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2841 kB of archives. After this operation, 9216 B disk space will be freed. Get:1 http://deb.debian.org/debian trixie/main amd64 perl-base amd64 5.40.0-7 [1675 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 gcc-14-base amd64 14.2.0-8 [47.2 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libstdc++6 amd64 14.2.0-8 [714 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 libgcc-s1 amd64 14.2.0-8 [72.7 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libaudit-common all 1:4.0.1-3 [12.4 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 libaudit1 amd64 1:4.0.1-3 [54.6 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libdebconfclient0 amd64 0.273 [10.1 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024b-3 [255 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2841 kB in 0s (94.8 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 ... 5167 files and directories currently installed.) Preparing to unpack .../perl-base_5.40.0-7_amd64.deb ... Unpacking perl-base (5.40.0-7) over (5.40.0-6) ... Setting up perl-base (5.40.0-7) ... (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 ... 5169 files and directories currently installed.) Preparing to unpack .../gcc-14-base_14.2.0-8_amd64.deb ... Unpacking gcc-14-base:amd64 (14.2.0-8) over (14.2.0-6) ... Setting up gcc-14-base:amd64 (14.2.0-8) ... (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 ... 5169 files and directories currently installed.) Preparing to unpack .../libstdc++6_14.2.0-8_amd64.deb ... Unpacking libstdc++6:amd64 (14.2.0-8) over (14.2.0-6) ... Setting up libstdc++6:amd64 (14.2.0-8) ... (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 ... 5169 files and directories currently installed.) Preparing to unpack .../libgcc-s1_14.2.0-8_amd64.deb ... Unpacking libgcc-s1:amd64 (14.2.0-8) over (14.2.0-6) ... Setting up libgcc-s1:amd64 (14.2.0-8) ... (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 ... 5169 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a4.0.1-3_all.deb ... Unpacking libaudit-common (1:4.0.1-3) over (1:3.1.2-4) ... Setting up libaudit-common (1:4.0.1-3) ... (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 ... 5169 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a4.0.1-3_amd64.deb ... Unpacking libaudit1:amd64 (1:4.0.1-3) over (1:3.1.2-4+b1) ... Setting up libaudit1:amd64 (1:4.0.1-3) ... (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 ... 5168 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.273_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.273) over (0.272+b1) ... Setting up libdebconfclient0:amd64 (0.273) ... (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 ... 5167 files and directories currently installed.) Preparing to unpack .../tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) over (2024a-4) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Nov 12 03:59:46 UTC 2024. Universal Time is now: Tue Nov 12 03:59:46 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Processing triggers for libc-bin (2.40-3) ... 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s DUMP: d633f6848891e48e2bb3398137c139dd - 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.6s INFO: Running scripts post_setup 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_dummy_users'] 0m3.0s 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 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_dummy_users'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_forbid_home'] 0m3.0s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_forbid_home'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.0s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_minimize'] 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_minimize'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_zz_backports'] 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_setup_zz_backports'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.0s DUMP: install ok installed apt apt 2.9.10 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.32-1+b2 install ok installed bsdutils bsdutils 1:2.40.2-9 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1+b1 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.10 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.1-3 install ok installed libaudit1:amd64 libaudit1 1:4.0.1-3 install ok installed libblkid1:amd64 libblkid1 2.40.2-9 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-3 install ok installed libc6:amd64 libc6 2.40-3 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-3 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.273 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1+b1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b2 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2+b1 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-9 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b2 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b2 install ok installed libselinux1:amd64 libselinux1 3.7-3 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-9 install ok installed libss2:amd64 libss2 1.47.1-1+b1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsystemd0:amd64 libsystemd0 256.7-3 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libudev1:amd64 libudev1 256.7-3 install ok installed libunistring5:amd64 libunistring5 1.2-1+b1 install ok installed libuuid1:amd64 libuuid1 2.40.2-9 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-9 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1+b1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-9 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl-base perl-base 5.40.0-7 install ok installed sed sed 4.9-2 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-3 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-9 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.0s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m3.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m3.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m3.2s INFO: Running scripts is_testable 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/is_testable_uninstallable'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/is_testable_uninstallable'] 0m3.2s INFO: Running scripts pre_test 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_test_exceptions'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_test_exceptions'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_test_root_password'] 0m3.2s DUMP: New password: Retype new password: passwd: password updated successfully 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_test_root_password'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'show', '--no-all-versions', 'python-mdtraj-doc'] 0m3.3s DUMP: Package: python-mdtraj-doc Source: mdtraj Version: 1.10.0-3 Installed-Size: 6368 Maintainer: Debichem Team Architecture: all Depends: libjs-mathjax, libjs-sphinxdoc (>= 7.3), sphinx-rtd-theme-common (>= 2.0.0+dfsg) Description-en: Read, write and analyze MD trajectories in Python (documentation) Read, write and analyze MD trajectories with only a few lines of Python code. . MDTraj is a Python library that allows users to manipulate molecular dynamics (MD) trajectories. Features include: * Wide MD format support, including pdb, xtc, trr, dcd, binpos, netcdf, mdcrd, prmtop, and more. * Extremely fast RMSD calculations (4x the speed of the original Theobald QCP). * Extensive analysis functions including those that compute bonds, angles, dihedrals, hydrogen bonds, secondary structure, and NMR observables. * Lightweight, Pythonic API. . This is the documentation package for mdtraj. Description-md5: 1aecee854be94be7118478b094fd2557 Multi-Arch: foreign Homepage: https://mdtraj.org/ Section: doc Priority: optional Filename: pool/main/m/mdtraj/python-mdtraj-doc_1.10.0-3_all.deb Size: 699552 MD5sum: 47118acb45349dfae238a73b54eca0bf SHA256: 515f9d671dfb07ee2023fa067af0d977f62a8928b07d7eabf909c472dd4f2f10 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'show', '--no-all-versions', 'python-mdtraj-doc'] 0m3.3s INFO: apt-cache knows about the following packages: python-mdtraj-doc 0m3.3s INFO: Running scripts pre_install 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_database-server'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_database-server'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_exceptions'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_exceptions'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_extras'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_extras'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy'] 0m3.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy', 'python-mdtraj-doc'] 0m3.4s DUMP: python-mdtraj-doc: Installed: (none) Candidate: 1.10.0-3 Version table: 1.10.0-3 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy', 'python-mdtraj-doc'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-y', 'install', 'python-mdtraj-doc'] 0m4.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: fonts-font-awesome fonts-lato fonts-mathjax libjs-jquery libjs-mathjax libjs-sphinxdoc libjs-underscore sphinx-rtd-theme-common Suggested packages: fonts-mathjax-extras fonts-stix libjs-mathjax-doc Recommended packages: javascript-common The following NEW packages will be installed: fonts-font-awesome fonts-lato fonts-mathjax libjs-jquery libjs-mathjax libjs-sphinxdoc libjs-underscore python-mdtraj-doc sphinx-rtd-theme-common 0 upgraded, 9 newly installed, 0 to remove and 0 not upgraded. Need to get 13.5 MB of archives. After this operation, 69.3 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 fonts-lato all 2.015-1 [2780 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 sphinx-rtd-theme-common all 3.0.1+dfsg-1 [1022 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 python-mdtraj-doc all 1.10.0-3 [700 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 13.5 MB in 0s (162 MB/s) Selecting previously unselected package fonts-lato. (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 ... 5159 files and directories currently installed.) Preparing to unpack .../0-fonts-lato_2.015-1_all.deb ... Unpacking fonts-lato (2.015-1) ... Selecting previously unselected package fonts-font-awesome. Preparing to unpack .../1-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Selecting previously unselected package fonts-mathjax. Preparing to unpack .../2-fonts-mathjax_2.7.9+dfsg-1_all.deb ... Unpacking fonts-mathjax (2.7.9+dfsg-1) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../3-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Selecting previously unselected package libjs-mathjax. Preparing to unpack .../4-libjs-mathjax_2.7.9+dfsg-1_all.deb ... Unpacking libjs-mathjax (2.7.9+dfsg-1) ... Selecting previously unselected package libjs-underscore. Preparing to unpack .../5-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Selecting previously unselected package libjs-sphinxdoc. Preparing to unpack .../6-libjs-sphinxdoc_7.4.7-4_all.deb ... Unpacking libjs-sphinxdoc (7.4.7-4) ... Selecting previously unselected package sphinx-rtd-theme-common. Preparing to unpack .../7-sphinx-rtd-theme-common_3.0.1+dfsg-1_all.deb ... Unpacking sphinx-rtd-theme-common (3.0.1+dfsg-1) ... Selecting previously unselected package python-mdtraj-doc. Preparing to unpack .../8-python-mdtraj-doc_1.10.0-3_all.deb ... Unpacking python-mdtraj-doc (1.10.0-3) ... Setting up fonts-lato (2.015-1) ... Setting up fonts-mathjax (2.7.9+dfsg-1) ... Setting up libjs-mathjax (2.7.9+dfsg-1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Setting up sphinx-rtd-theme-common (3.0.1+dfsg-1) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libjs-sphinxdoc (7.4.7-4) ... Setting up python-mdtraj-doc (1.10.0-3) ... 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-y', 'install', 'python-mdtraj-doc'] 0m4.5s INFO: Running scripts post_install 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_install_exceptions'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_install_exceptions'] 0m4.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m4.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m4.8s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpk92roqt0 to sid 0m4.8s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m4.8s INFO: Running scripts pre_distupgrade 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_exceptions'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_exceptions'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', 'update'] 0m6.8s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [202 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.0 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7329 kB] Fetched 17.6 MB in 1s (12.2 MB/s) Reading package lists... 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', 'update'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-yf', 'dist-upgrade'] 0m7.8s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: bsdutils libaudit-common libaudit1 libblkid1 libgnutls30t64 libmount1 libsmartcols1 libsystemd0 libudev1 libuuid1 login mount python-mdtraj-doc util-linux 14 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 6082 kB of archives. After this operation, 3834 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.40.2-10 [105 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.40.2-10 [35.7 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.40.2-10 [168 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.40.2-10 [199 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.40.2-10 [139 kB] Get:6 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.40.2-10 [1217 kB] Get:7 http://deb.debian.org/debian sid/main amd64 mount amd64 2.40.2-10 [154 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:4.0.2-1 [12.7 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:4.0.2-1 [54.7 kB] Get:10 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.40.2-10 [81.4 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libgnutls30t64 amd64 3.8.8-2 [1454 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 257~rc1-4 [446 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 257~rc1-4 [146 kB] Get:14 http://deb.debian.org/debian sid/main amd64 python-mdtraj-doc all 1.10.1-2 [1870 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6082 kB in 0s (133 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 ... 9978 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.40.2-10_amd64.deb ... Unpacking bsdutils (1:2.40.2-10) over (1:2.40.2-9) ... Setting up bsdutils (1:2.40.2-10) ... (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 ... 9978 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.2-10_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.2-10) over (2.40.2-9) ... Setting up libsmartcols1:amd64 (2.40.2-10) ... (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 ... 9978 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-10_amd64.deb ... Unpacking util-linux (2.40.2-10) over (2.40.2-9) ... Setting up util-linux (2.40.2-10) ... (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 ... 9978 files and directories currently installed.) Preparing to unpack .../mount_2.40.2-10_amd64.deb ... Unpacking mount (2.40.2-10) over (2.40.2-9) ... Preparing to unpack .../libaudit-common_1%3a4.0.2-1_all.deb ... Unpacking libaudit-common (1:4.0.2-1) over (1:4.0.1-3) ... Setting up libaudit-common (1:4.0.2-1) ... (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 ... 9978 files and directories currently installed.) Preparing to unpack .../login_1%3a4.16.0-2+really2.40.2-10_amd64.deb ... Unpacking login (1:4.16.0-2+really2.40.2-10) over (1:4.16.0-2+really2.40.2-9) ... Preparing to unpack .../libgnutls30t64_3.8.8-2_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.8-2) over (3.8.6-2+b1) ... Setting up libgnutls30t64:amd64 (3.8.8-2) ... (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 ... 9977 files and directories currently installed.) Preparing to unpack .../libsystemd0_257~rc1-4_amd64.deb ... Unpacking libsystemd0:amd64 (257~rc1-4) over (256.7-3) ... Setting up libsystemd0:amd64 (257~rc1-4) ... (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 ... 9977 files and directories currently installed.) Preparing to unpack .../libudev1_257~rc1-4_amd64.deb ... Unpacking libudev1:amd64 (257~rc1-4) over (256.7-3) ... Setting up libudev1:amd64 (257~rc1-4) ... (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 ... 9977 files and directories currently installed.) Preparing to unpack .../python-mdtraj-doc_1.10.1-2_all.deb ... Unpacking python-mdtraj-doc (1.10.1-2) over (1.10.0-3) ... Setting up mount (2.40.2-10) ... Setting up python-mdtraj-doc (1.10.1-2) ... Setting up login (1:4.16.0-2+really2.40.2-10) ... Processing triggers for libc-bin (2.40-3) ... 0m7.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-yf', 'dist-upgrade'] 0m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m8.0s DUMP: 1693f321fe93b6f77b7204a840d9ade6 - 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'show', '--no-all-versions', 'python-mdtraj-doc'] 0m8.1s DUMP: Package: python-mdtraj-doc Source: mdtraj Version: 1.10.1-2 Installed-Size: 9915 Maintainer: Debichem Team Architecture: all Depends: libjs-mathjax, libjs-sphinxdoc (>= 7.4), sphinx-rtd-theme-common (>= 3.0.1+dfsg) Description-en: Read, write and analyze MD trajectories in Python (documentation) Read, write and analyze MD trajectories with only a few lines of Python code. . MDTraj is a Python library that allows users to manipulate molecular dynamics (MD) trajectories. Features include: * Wide MD format support, including pdb, xtc, trr, dcd, binpos, netcdf, mdcrd, prmtop, and more. * Extremely fast RMSD calculations (4x the speed of the original Theobald QCP). * Extensive analysis functions including those that compute bonds, angles, dihedrals, hydrogen bonds, secondary structure, and NMR observables. * Lightweight, Pythonic API. . This is the documentation package for mdtraj. Description-md5: 1aecee854be94be7118478b094fd2557 Multi-Arch: foreign Homepage: https://mdtraj.org/ Section: doc Priority: optional Filename: pool/main/m/mdtraj/python-mdtraj-doc_1.10.1-2_all.deb Size: 1869904 MD5sum: 4bfd5b368a968eeafcb5ff074bdf6f93 SHA256: 4373874f4c227769c3aa3893342669e2cb7ab3fe2b4cb8b211fd5f12adda65e2 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'show', '--no-all-versions', 'python-mdtraj-doc'] 0m8.1s INFO: apt-cache knows about the following packages: python-mdtraj-doc 0m8.1s INFO: Running scripts pre_install 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_database-server'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_database-server'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_exceptions'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_exceptions'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_extras'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_extras'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy'] 0m8.1s 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: 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy', 'python-mdtraj-doc'] 0m8.1s DUMP: python-mdtraj-doc: Installed: 1.10.1-2 Candidate: 1.10.1-2 Version table: *** 1.10.1-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy', 'python-mdtraj-doc'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-y', 'install', 'python-mdtraj-doc'] 0m8.4s DUMP: Reading package lists... Building dependency tree... Reading state information... python-mdtraj-doc is already the newest version (1.10.1-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-y', 'install', 'python-mdtraj-doc'] 0m8.4s INFO: Running scripts post_install 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_install_exceptions'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_install_exceptions'] 0m8.4s INFO: Running scripts post_distupgrade 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_exceptions'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_exceptions'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_zz_backports'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_distupgrade_zz_backports'] 0m8.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m8.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m8.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m9.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m9.1s INFO: Running scripts pre_install 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_database-server'] 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_database-server'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_exceptions'] 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_exceptions'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_extras'] 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_extras'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy'] 0m9.1s 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: 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy', 'python-mdtraj-doc'] 0m9.1s DUMP: python-mdtraj-doc: Installed: 1.10.1-2 Candidate: 1.10.1-2 Version table: *** 1.10.1-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-cache', 'policy', 'python-mdtraj-doc'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-y', 'install', 'python-mdtraj-doc=1.10.1-2'] 0m9.4s DUMP: Reading package lists... Building dependency tree... Reading state information... python-mdtraj-doc is already the newest version (1.10.1-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', '-y', 'install', 'python-mdtraj-doc=1.10.1-2'] 0m9.4s INFO: Running scripts post_install 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_install_exceptions'] 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_install_exceptions'] 0m9.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m9.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m10.1s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', '-ac', '--ignore-obsolete'] 0m10.7s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', '-ac', '--ignore-obsolete'] 0m10.7s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m10.7s DUMP: 0.15.6 0m10.7s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m10.7s INFO: Running adequate version 0.15.6 now. 0m10.7s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'python-mdtraj-doc'] 0m10.8s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'python-mdtraj-doc'] 0m10.8s INFO: Running scripts pre_remove 0m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m10.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m10.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m11.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m11.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_exceptions'] 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/pre_remove_exceptions'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m11.2s DUMP: install ok installed apt apt 2.9.10 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.32-1+b2 install ok installed bsdutils bsdutils 1:2.40.2-10 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1+b1 install ok installed findutils findutils 4.10.0-3 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-mathjax fonts-mathjax 2.7.9+dfsg-1 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.10 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-1 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-1 install ok installed libblkid1:amd64 libblkid1 2.40.2-10 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-3 install ok installed libc6:amd64 libc6 2.40-3 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-3 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.273 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1+b1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b2 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed libjs-jquery libjs-jquery 3.6.1+dfsg+~3.5.14-1 install ok installed libjs-mathjax libjs-mathjax 2.7.9+dfsg-1 install ok installed libjs-sphinxdoc libjs-sphinxdoc 7.4.7-4 install ok installed libjs-underscore libjs-underscore 1.13.4~dfsg+~1.11.4-3 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-10 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b2 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b2 install ok installed libselinux1:amd64 libselinux1 3.7-3 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-10 install ok installed libss2:amd64 libss2 1.47.1-1+b1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsystemd0:amd64 libsystemd0 257~rc1-4 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libudev1:amd64 libudev1 257~rc1-4 install ok installed libunistring5:amd64 libunistring5 1.2-1+b1 install ok installed libuuid1:amd64 libuuid1 2.40.2-10 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-10 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1+b1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-10 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl-base perl-base 5.40.0-7 install ok installed python-mdtraj-doc python-mdtraj-doc 1.10.1-2 install ok installed sed sed 4.9-2 install ok installed sphinx-rtd-theme-common sphinx-rtd-theme-common 3.0.1+dfsg-1 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-3 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-10 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m11.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m11.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', 'remove', 'fonts-font-awesome', 'fonts-lato', 'fonts-mathjax', 'libjs-jquery', 'libjs-mathjax', 'libjs-sphinxdoc', 'libjs-underscore', 'sphinx-rtd-theme-common', 'python-mdtraj-doc'] 0m11.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: fonts-font-awesome fonts-lato fonts-mathjax libjs-jquery libjs-mathjax libjs-sphinxdoc libjs-underscore python-mdtraj-doc sphinx-rtd-theme-common 0 upgraded, 0 newly installed, 9 to remove and 0 not upgraded. After this operation, 72.9 MB disk space will be freed. (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 ... 10082 files and directories currently installed.) Removing python-mdtraj-doc (1.10.1-2) ... Removing sphinx-rtd-theme-common (3.0.1+dfsg-1) ... Removing fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... Removing fonts-lato (2.015-1) ... Removing libjs-mathjax (2.7.9+dfsg-1) ... Removing fonts-mathjax (2.7.9+dfsg-1) ... Removing libjs-sphinxdoc (7.4.7-4) ... Removing libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Removing libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 0m11.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', 'remove', 'fonts-font-awesome', 'fonts-lato', 'fonts-mathjax', 'libjs-jquery', 'libjs-mathjax', 'libjs-sphinxdoc', 'libjs-underscore', 'sphinx-rtd-theme-common', 'python-mdtraj-doc'] 0m11.7s INFO: Running scripts post_remove 0m11.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_remove_exceptions'] 0m11.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_remove_exceptions'] 0m11.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg', '--purge', 'fonts-font-awesome', 'fonts-lato', 'fonts-mathjax', 'libjs-jquery', 'libjs-mathjax', 'libjs-sphinxdoc', 'libjs-underscore', 'sphinx-rtd-theme-common'] 0m11.9s DUMP: (Reading database ... 5158 files and directories currently installed.) 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-mathjax 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-mathjax 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 sphinx-rtd-theme-common which isn't installed 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg', '--purge', 'fonts-font-awesome', 'fonts-lato', 'fonts-mathjax', 'libjs-jquery', 'libjs-mathjax', 'libjs-sphinxdoc', 'libjs-underscore', 'sphinx-rtd-theme-common'] 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg', '--purge', 'python-mdtraj-doc'] 0m11.9s DUMP: dpkg: warning: ignoring request to remove python-mdtraj-doc which isn't installed 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg', '--purge', 'python-mdtraj-doc'] 0m11.9s INFO: Running scripts post_purge 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_purge_exceptions'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_purge_exceptions'] 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg', '--purge', '--pending'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg', '--purge', '--pending'] 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg', '--remove', '--pending'] 0m11.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg', '--remove', '--pending'] 0m11.9s INFO: Running scripts post_test 0m11.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_test_exceptions'] 0m12.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'tmp/scripts/post_test_exceptions'] 0m12.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m12.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m12.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg-divert', '--list'] 0m12.1s DUMP: diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m12.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'dpkg-divert', '--list'] 0m12.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', 'clean'] 0m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpk92roqt0', 'apt-get', 'clean'] 0m12.2s DEBUG: Recording chroot state 0m12.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/shm'] 0m12.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/shm'] 0m12.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/console'] 0m12.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/console'] 0m12.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/ptmx'] 0m12.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/ptmx'] 0m12.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/pts'] 0m12.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/dev/pts'] 0m12.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/proc'] 0m12.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpk92roqt0/proc'] 0m12.7s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m12.8s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpk92roqt0'] 0m12.8s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpk92roqt0 0m12.8s INFO: PASS: Upgrading between Debian distributions. 0m12.8s INFO: PASS: All tests. 0m12.8s INFO: piuparts run ends. ret=0 End: 2024-11-12 03:59:57 GMT