Start: 2017-08-15 06:51:31 UTC [stretch] Package: apbs Source: apbs (1.4-1) Version: 1.4-1+b1 Installed-Size: 617 Maintainer: Debichem Team Architecture: amd64 Depends: libc6 (>= 2.14), libgomp1 (>= 4.9), libmaloc1 (>= 0.2-1), zlib1g (>= 1:1.1.4) Description: Adaptive Poisson Boltzmann Solver Homepage: http://apbs.sourceforge.net Description-md5: 2f4ced7db86ccb9883d2869243d89809 Tag: field::chemistry, implemented-in::c, interface::commandline, role::program, scope::utility Section: science Priority: optional Filename: pool/main/a/apbs/apbs_1.4-1+b1_amd64.deb Size: 218476 MD5sum: ac8e677578405e4090a772e19437a492 SHA256: 5d69d5bc8f0f0180c3ee230c42a27e5dc6f8df73b8dde416cfe25f7949d3ea69 [buster] Package: apbs Source: apbs (1.4-1) Version: 1.4-1+b1 Installed-Size: 617 Maintainer: Debichem Team Architecture: amd64 Depends: libc6 (>= 2.14), libgomp1 (>= 4.9), libmaloc1 (>= 0.2-1), zlib1g (>= 1:1.1.4) Description: Adaptive Poisson Boltzmann Solver Homepage: http://apbs.sourceforge.net Description-md5: 2f4ced7db86ccb9883d2869243d89809 Section: science Priority: optional Filename: pool/main/a/apbs/apbs_1.4-1+b1_amd64.deb Size: 218476 MD5sum: ac8e677578405e4090a772e19437a492 SHA256: 5d69d5bc8f0f0180c3ee230c42a27e5dc6f8df73b8dde416cfe25f7949d3ea69 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python2.7/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --install-recommends --skip-logrotatefiles-test --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://mirror-ubc.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B reference-chroot-metadata.dat --apt apbs=1.4-1+b1 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 0.79~201708091918~0.78-37-gedab6a4d starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-recommends --skip-logrotatefiles-test --warn-on-others --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://mirror-ubc.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B reference-chroot-metadata.dat --apt apbs=1.4-1+b1 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 4.9.0-3-amd64 #1 SMP Debian 4.9.30-2+deb9u3 (2017-08-06) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpiU68xN 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpiU68xN 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpiU68xN', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpiU68xN', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpiU68xN/proc'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpiU68xN/proc'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/pts'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/pts'] 0m1.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/ptmx'] 0m1.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/ptmx'] 0m1.4s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/console'] 0m1.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/console'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/shm'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/shm'] 0m1.5s DEBUG: sources.list: deb http://mirror-ubc.debian.org/debian/ stretch main 0m1.5s DEBUG: Created policy-rc.d and chmodded it. 0m1.5s DEBUG: Created resolv.conf. 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', 'update'] 0m4.3s DUMP: Ign:1 http://mirror-ubc.debian.org/debian stretch InRelease Get:2 http://mirror-ubc.debian.org/debian stretch Release [118 kB] Get:3 http://mirror-ubc.debian.org/debian stretch Release.gpg [2373 B] Get:4 http://mirror-ubc.debian.org/debian stretch/main amd64 Packages [7095 kB] Get:5 http://mirror-ubc.debian.org/debian stretch/main Translation-en [5393 kB] Fetched 12.6 MB in 2s (5827 kB/s) Reading package lists... 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', 'update'] 0m4.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpiU68xN/tmp/scripts/ 0m4.3s INFO: Running scripts post_chroot_unpack 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-yf', 'dist-upgrade'] 0m6.3s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: apt base-files libapt-pkg5.0 libc-bin libc6 libgcrypt20 libsystemd0 libudev1 multiarch-support perl-base 10 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 8157 kB of archives. After this operation, 4096 B of additional disk space will be used. Get:1 http://mirror-ubc.debian.org/debian stretch/main amd64 base-files amd64 9.9+deb9u1 [67.2 kB] Get:2 http://mirror-ubc.debian.org/debian stretch/main amd64 perl-base amd64 5.24.1-3+deb9u1 [1343 kB] Get:3 http://mirror-ubc.debian.org/debian stretch/main amd64 libc6 amd64 2.24-11+deb9u1 [2695 kB] Get:4 http://mirror-ubc.debian.org/debian stretch/main amd64 libc-bin amd64 2.24-11+deb9u1 [778 kB] Get:5 http://mirror-ubc.debian.org/debian stretch/main amd64 libapt-pkg5.0 amd64 1.4.7 [916 kB] Get:6 http://mirror-ubc.debian.org/debian stretch/main amd64 apt amd64 1.4.7 [1231 kB] Get:7 http://mirror-ubc.debian.org/debian stretch/main amd64 libsystemd0 amd64 232-25+deb9u1 [280 kB] Get:8 http://mirror-ubc.debian.org/debian stretch/main amd64 multiarch-support amd64 2.24-11+deb9u1 [200 kB] Get:9 http://mirror-ubc.debian.org/debian stretch/main amd64 libudev1 amd64 232-25+deb9u1 [124 kB] Get:10 http://mirror-ubc.debian.org/debian stretch/main amd64 libgcrypt20 amd64 1.7.6-2+deb9u1 [522 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 8157 kB in 0s (86.6 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 ... 4409 files and directories currently installed.) Preparing to unpack .../base-files_9.9+deb9u1_amd64.deb ... Unpacking base-files (9.9+deb9u1) over (9.9) ... Setting up base-files (9.9+deb9u1) ... Installing new version of config file /etc/debian_version ... (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 ... 4409 files and directories currently installed.) Preparing to unpack .../libsystemd0_232-25+deb9u1_amd64.deb ... Unpacking libsystemd0:amd64 (232-25+deb9u1) over (232-25) ... Setting up libsystemd0:amd64 (232-25+deb9u1) ... (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 ... 4409 files and directories currently installed.) Preparing to unpack .../multiarch-support_2.24-11+deb9u1_amd64.deb ... Unpacking multiarch-support (2.24-11+deb9u1) over (2.24-11) ... Setting up multiarch-support (2.24-11+deb9u1) ... (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 ... 4409 files and directories currently installed.) Preparing to unpack .../libudev1_232-25+deb9u1_amd64.deb ... Unpacking libudev1:amd64 (232-25+deb9u1) over (232-25) ... Setting up libudev1:amd64 (232-25+deb9u1) ... (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 ... 4409 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.7.6-2+deb9u1_amd64.deb ... Unpacking libgcrypt20:amd64 (1.7.6-2+deb9u1) over (1.7.6-2) ... Setting up libgcrypt20:amd64 (1.7.6-2+deb9u1) ... Processing triggers for libc-bin (2.24-11+deb9u1) ... 0m6.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-yf', 'dist-upgrade'] 0m6.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.5s DUMP: 599db98301e7fe59393c2cb9d2bb3b04 - 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.5s INFO: Running scripts post_setup 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_dummy_users'] 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_dummy_users'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_forbid_home'] 0m6.9s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_forbid_home'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.9s DUMP: dpkg: error: error writing to '': Broken pipe Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_minimize'] 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_minimize'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_zz_backports'] 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_setup_zz_backports'] 0m6.9s DEBUG: Loading chroot meta data from reference-chroot-metadata.dat 0m7.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m7.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m7.5s INFO: Running scripts is_testable 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/is_testable_uninstallable'] 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/is_testable_uninstallable'] 0m7.5s INFO: Running scripts pre_test 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_test_exceptions'] 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_test_exceptions'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_test_root_password'] 0m7.5s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_test_root_password'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'show', 'apbs'] 0m7.6s DUMP: Package: apbs Source: apbs (1.4-1) Version: 1.4-1+b1 Installed-Size: 617 Maintainer: Debichem Team Architecture: amd64 Depends: libc6 (>= 2.14), libgomp1 (>= 4.9), libmaloc1 (>= 0.2-1), zlib1g (>= 1:1.1.4) Description-en: Adaptive Poisson Boltzmann Solver APBS is a software package for the numerical solution of the Poisson-Boltzmann equation (PBE), one of the most popular continuum models for describing electrostatic interactions between molecular solutes in salty, aqueous media. Continuum electrostatics plays an important role in several areas of biomolecular simulation, including: . * simulation of diffusional processes to determine ligand-protein and protein-protein binding kinetics, * implicit solvent molecular dynamics of biomolecules , * solvation and binding energy calculations to determine ligand-protein and protein-protein equilibrium binding constants and aid in rational drug design, * and biomolecular titration studies. . APBS was designed to efficiently evaluate electrostatic properties for such simulations for a wide range of length scales to enable the investigation of molecules with tens to millions of atoms. Description-md5: 2f4ced7db86ccb9883d2869243d89809 Homepage: http://apbs.sourceforge.net Tag: field::chemistry, implemented-in::c, interface::commandline, role::program, scope::utility Section: science Priority: optional Filename: pool/main/a/apbs/apbs_1.4-1+b1_amd64.deb Size: 218476 MD5sum: ac8e677578405e4090a772e19437a492 SHA256: 5d69d5bc8f0f0180c3ee230c42a27e5dc6f8df73b8dde416cfe25f7949d3ea69 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'show', 'apbs'] 0m7.6s INFO: apt-cache knows about the following packages: apbs 0m7.6s INFO: Running scripts pre_install 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_database-server'] 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_database-server'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_exceptions'] 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_exceptions'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_extras'] 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_extras'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy'] 0m7.6s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://mirror-ubc.debian.org/debian stretch/main amd64 Packages release v=9.1,o=Debian,a=stable,n=stretch,l=Debian,c=main,b=amd64 origin mirror-ubc.debian.org Pinned packages: 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy', 'apbs'] 0m7.7s DUMP: apbs: Installed: (none) Candidate: 1.4-1+b1 Version table: 1.4-1+b1 500 500 http://mirror-ubc.debian.org/debian stretch/main amd64 Packages 0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy', 'apbs'] 0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-y', 'install', 'apbs'] 0m8.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libgomp1 libmaloc1 The following NEW packages will be installed: apbs libgomp1 libmaloc1 0 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 341 kB of archives. After this operation, 992 kB of additional disk space will be used. Get:1 http://mirror-ubc.debian.org/debian stretch/main amd64 libgomp1 amd64 6.3.0-18 [73.2 kB] Get:2 http://mirror-ubc.debian.org/debian stretch/main amd64 libmaloc1 amd64 0.2-3.1 [49.3 kB] Get:3 http://mirror-ubc.debian.org/debian stretch/main amd64 apbs amd64 1.4-1+b1 [218 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 341 kB in 0s (3722 kB/s) Selecting previously unselected package libgomp1: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 ... 4411 files and directories currently installed.) Preparing to unpack .../libgomp1_6.3.0-18_amd64.deb ... Unpacking libgomp1:amd64 (6.3.0-18) ... Selecting previously unselected package libmaloc1. Preparing to unpack .../libmaloc1_0.2-3.1_amd64.deb ... Unpacking libmaloc1 (0.2-3.1) ... Selecting previously unselected package apbs. Preparing to unpack .../apbs_1.4-1+b1_amd64.deb ... Unpacking apbs (1.4-1+b1) ... Setting up libgomp1:amd64 (6.3.0-18) ... Setting up libmaloc1 (0.2-3.1) ... Processing triggers for libc-bin (2.24-11+deb9u1) ... Setting up apbs (1.4-1+b1) ... 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-y', 'install', 'apbs'] 0m8.3s INFO: Running scripts post_install 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_install_exceptions'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_install_exceptions'] 0m8.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m8.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m8.4s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpiU68xN to buster 0m8.4s DEBUG: sources.list: deb http://mirror-ubc.debian.org/debian/ buster main 0m8.4s INFO: Running scripts pre_distupgrade 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_distupgrade_exceptions'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_distupgrade_exceptions'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m8.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m8.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', 'update'] 0m11.5s DUMP: Get:1 http://mirror-ubc.debian.org/debian buster InRelease [123 kB] Get:2 http://mirror-ubc.debian.org/debian buster/main amd64 Packages [7051 kB] Get:3 http://mirror-ubc.debian.org/debian buster/main Translation-en [5536 kB] Fetched 12.7 MB in 2s (5386 kB/s) Reading package lists... 0m11.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', 'update'] 0m11.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-yf', 'dist-upgrade'] 0m22.0s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: ca-certificates gcc-7-base libffi6 libgmp10 libgnutls30 libhogweed4 libidn2-0 libnettle6 libp11-kit0 libssl1.1 libtasn1-6 libunistring2 openssl The following packages will be upgraded: apt base-files bsdutils dash debconf debianutils diffutils e2fslibs e2fsprogs findutils gcc-6-base gpgv grep init-system-helpers libapt-pkg5.0 libaudit-common libaudit1 libblkid1 libc-bin libc6 libcomerr2 libdb5.3 libdebconfclient0 libfdisk1 libgcc1 libgcrypt20 libgomp1 libgpg-error0 liblzma5 libmount1 libncursesw5 libpcre3 libselinux1 libsemanage1 libsmartcols1 libss2 libstdc++6 libsystemd0 libtinfo5 libudev1 libuuid1 mount multiarch-support ncurses-base ncurses-bin perl-base sensible-utils tar util-linux 49 upgraded, 13 newly installed, 0 to remove and 0 not upgraded. Need to get 22.6 MB of archives. After this operation, 12.5 MB of additional disk space will be used. Get:1 http://mirror-ubc.debian.org/debian buster/main amd64 base-files amd64 10 [67.2 kB] Get:2 http://mirror-ubc.debian.org/debian buster/main amd64 bsdutils amd64 1:2.29.2-2 [112 kB] Get:3 http://mirror-ubc.debian.org/debian buster/main amd64 debianutils amd64 4.8.2 [100 kB] Get:4 http://mirror-ubc.debian.org/debian buster/main amd64 dash amd64 0.5.8-2.5 [109 kB] Get:5 http://mirror-ubc.debian.org/debian buster/main amd64 diffutils amd64 1:3.6-1 [328 kB] Get:6 http://mirror-ubc.debian.org/debian buster/main amd64 gcc-7-base amd64 7.1.0-10 [180 kB] Get:7 http://mirror-ubc.debian.org/debian buster/main amd64 libgcc1 amd64 1:7.1.0-10 [39.3 kB] Get:8 http://mirror-ubc.debian.org/debian buster/main amd64 libc6 amd64 2.24-12 [2692 kB] Get:9 http://mirror-ubc.debian.org/debian buster/main amd64 e2fslibs amd64 1.43.5-1 [212 kB] Get:10 http://mirror-ubc.debian.org/debian buster/main amd64 e2fsprogs amd64 1.43.5-1 [966 kB] Get:11 http://mirror-ubc.debian.org/debian buster/main amd64 findutils amd64 4.6.0+git+20170729-2 [633 kB] Get:12 http://mirror-ubc.debian.org/debian buster/main amd64 grep amd64 3.1-2 [378 kB] Get:13 http://mirror-ubc.debian.org/debian buster/main amd64 util-linux amd64 2.29.2-2 [957 kB] Get:14 http://mirror-ubc.debian.org/debian buster/main amd64 mount amd64 2.29.2-2 [190 kB] Get:15 http://mirror-ubc.debian.org/debian buster/main amd64 libtinfo5 amd64 6.0+20170715-2 [308 kB] Get:16 http://mirror-ubc.debian.org/debian buster/main amd64 libncursesw5 amd64 6.0+20170715-2 [116 kB] Get:17 http://mirror-ubc.debian.org/debian buster/main amd64 ncurses-bin amd64 6.0+20170715-2 [383 kB] Get:18 http://mirror-ubc.debian.org/debian buster/main amd64 perl-base amd64 5.26.0-5 [1380 kB] Get:19 http://mirror-ubc.debian.org/debian buster/main amd64 tar amd64 1.29b-2 [760 kB] Get:20 http://mirror-ubc.debian.org/debian buster/main amd64 init-system-helpers all 1.49 [43.3 kB] Get:21 http://mirror-ubc.debian.org/debian buster/main amd64 libc-bin amd64 2.24-12 [779 kB] Get:22 http://mirror-ubc.debian.org/debian buster/main amd64 ncurses-base all 6.0+20170715-2 [245 kB] Get:23 http://mirror-ubc.debian.org/debian buster/main amd64 liblzma5 amd64 5.2.2-1.3 [234 kB] Get:24 http://mirror-ubc.debian.org/debian buster/main amd64 libstdc++6 amd64 7.1.0-10 [397 kB] Get:25 http://mirror-ubc.debian.org/debian buster/main amd64 libapt-pkg5.0 amd64 1.5~beta1 [922 kB] Get:26 http://mirror-ubc.debian.org/debian buster/main amd64 libgmp10 amd64 2:6.1.2+dfsg-1 [253 kB] Get:27 http://mirror-ubc.debian.org/debian buster/main amd64 libnettle6 amd64 3.3-1+b1 [191 kB] Get:28 http://mirror-ubc.debian.org/debian buster/main amd64 libhogweed4 amd64 3.3-1+b1 [136 kB] Get:29 http://mirror-ubc.debian.org/debian buster/main amd64 libunistring2 amd64 0.9.7-2 [377 kB] Get:30 http://mirror-ubc.debian.org/debian buster/main amd64 libidn2-0 amd64 2.0.2-1 [57.3 kB] Get:31 http://mirror-ubc.debian.org/debian buster/main amd64 libffi6 amd64 3.2.1-6 [20.4 kB] Get:32 http://mirror-ubc.debian.org/debian buster/main amd64 libp11-kit0 amd64 0.23.7-3 [190 kB] Get:33 http://mirror-ubc.debian.org/debian buster/main amd64 libtasn1-6 amd64 4.12-2.1 [51.1 kB] Get:34 http://mirror-ubc.debian.org/debian buster/main amd64 libgnutls30 amd64 3.5.14-2 [878 kB] Get:35 http://mirror-ubc.debian.org/debian buster/main amd64 libgpg-error0 amd64 1.27-3 [115 kB] Get:36 http://mirror-ubc.debian.org/debian buster/main amd64 libgcrypt20 amd64 1.7.8-2 [524 kB] Get:37 http://mirror-ubc.debian.org/debian buster/main amd64 gpgv amd64 2.1.18-8 [480 kB] Get:38 http://mirror-ubc.debian.org/debian buster/main amd64 apt amd64 1.5~beta1 [1237 kB] Get:39 http://mirror-ubc.debian.org/debian buster/main amd64 debconf all 1.5.63 [160 kB] Get:40 http://mirror-ubc.debian.org/debian buster/main amd64 libsystemd0 amd64 234-2 [283 kB] Get:41 http://mirror-ubc.debian.org/debian buster/main amd64 libuuid1 amd64 2.29.2-2 [69.7 kB] Get:42 http://mirror-ubc.debian.org/debian buster/main amd64 libblkid1 amd64 2.29.2-2 [169 kB] Get:43 http://mirror-ubc.debian.org/debian buster/main amd64 libcomerr2 amd64 1.43.5-1 [64.9 kB] Get:44 http://mirror-ubc.debian.org/debian buster/main amd64 libfdisk1 amd64 2.29.2-2 [203 kB] Get:45 http://mirror-ubc.debian.org/debian buster/main amd64 libpcre3 amd64 2:8.39-4 [337 kB] Get:46 http://mirror-ubc.debian.org/debian buster/main amd64 libselinux1 amd64 2.6-3+b2 [101 kB] Get:47 http://mirror-ubc.debian.org/debian buster/main amd64 libmount1 amd64 2.29.2-2 [178 kB] Get:48 http://mirror-ubc.debian.org/debian buster/main amd64 libsmartcols1 amd64 2.29.2-2 [126 kB] Get:49 http://mirror-ubc.debian.org/debian buster/main amd64 libss2 amd64 1.43.5-1 [69.2 kB] Get:50 http://mirror-ubc.debian.org/debian buster/main amd64 sensible-utils all 0.0.9+nmu1 [11.0 kB] Get:51 http://mirror-ubc.debian.org/debian buster/main amd64 libudev1 amd64 234-2 [124 kB] Get:52 http://mirror-ubc.debian.org/debian buster/main amd64 libdb5.3 amd64 5.3.28-13 [679 kB] Get:53 http://mirror-ubc.debian.org/debian buster/main amd64 libaudit-common all 1:2.7.7-1 [20.1 kB] Get:54 http://mirror-ubc.debian.org/debian buster/main amd64 libaudit1 amd64 1:2.7.7-1+b2 [54.6 kB] Get:55 http://mirror-ubc.debian.org/debian buster/main amd64 libdebconfclient0 amd64 0.229 [47.9 kB] Get:56 http://mirror-ubc.debian.org/debian buster/main amd64 libsemanage1 amd64 2.6-2+b1 [103 kB] Get:57 http://mirror-ubc.debian.org/debian buster/main amd64 libgomp1 amd64 7.1.0-10 [75.1 kB] Get:58 http://mirror-ubc.debian.org/debian buster/main amd64 gcc-6-base amd64 6.4.0-1 [180 kB] Get:59 http://mirror-ubc.debian.org/debian buster/main amd64 multiarch-support amd64 2.24-12 [200 kB] Get:60 http://mirror-ubc.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.0f-4 [1349 kB] Get:61 http://mirror-ubc.debian.org/debian buster/main amd64 openssl amd64 1.1.0f-4 [725 kB] Get:62 http://mirror-ubc.debian.org/debian buster/main amd64 ca-certificates all 20161130+nmu1 [196 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 22.6 MB in 0s (77.9 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 ... 4426 files and directories currently installed.) Preparing to unpack .../base-files_10_amd64.deb ... Unpacking base-files (10) over (9.9+deb9u1) ... Setting up base-files (10) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... (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 ... 4426 files and directories currently installed.) Preparing to unpack .../dash_0.5.8-2.5_amd64.deb ... Unpacking dash (0.5.8-2.5) over (0.5.8-2.4) ... Setting up dash (0.5.8-2.5) ... (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 ... 4426 files and directories currently installed.) Preparing to unpack .../diffutils_1%3a3.6-1_amd64.deb ... Unpacking diffutils (1:3.6-1) over (1:3.5-3) ... Setting up diffutils (1:3.6-1) ... Selecting previously unselected package gcc-7-base: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 ... 4426 files and directories currently installed.) Preparing to unpack .../gcc-7-base_7.1.0-10_amd64.deb ... Unpacking gcc-7-base:amd64 (7.1.0-10) ... Setting up gcc-7-base:amd64 (7.1.0-10) ... (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 ... 4433 files and directories currently installed.) Preparing to unpack .../libc6_2.24-12_amd64.deb ... Unpacking libc6:amd64 (2.24-12) over (2.24-11+deb9u1) ... Setting up libc6:amd64 (2.24-12) ... (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 ... 4433 files and directories currently installed.) Preparing to unpack .../e2fslibs_1.43.5-1_amd64.deb ... Unpacking e2fslibs:amd64 (1.43.5-1) over (1.43.4-2) ... Setting up e2fslibs:amd64 (1.43.5-1) ... (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 ... 4490 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.5.14-2_amd64.deb ... Unpacking libgnutls30:amd64 (3.5.14-2) ... Setting up libgnutls30:amd64 (3.5.14-2) ... (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 ... 4517 files and directories currently installed.) Preparing to unpack .../gpgv_2.1.18-8_amd64.deb ... Unpacking gpgv (2.1.18-8) over (2.1.18-6) ... Setting up gpgv (2.1.18-8) ... (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 ... 4517 files and directories currently installed.) Preparing to unpack .../apt_1.5~beta1_amd64.deb ... Unpacking apt (1.5~beta1) over (1.4.7) ... Setting up apt (1.5~beta1) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../debconf_1.5.63_all.deb ... Unpacking debconf (1.5.63) over (1.5.61) ... Setting up debconf (1.5.63) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libsystemd0_234-2_amd64.deb ... Unpacking libsystemd0:amd64 (234-2) over (232-25+deb9u1) ... Setting up libsystemd0:amd64 (234-2) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libuuid1_2.29.2-2_amd64.deb ... Unpacking libuuid1:amd64 (2.29.2-2) over (2.29.2-1) ... Setting up libuuid1:amd64 (2.29.2-2) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libcomerr2_1.43.5-1_amd64.deb ... Unpacking libcomerr2:amd64 (1.43.5-1) over (1.43.4-2) ... Setting up libcomerr2:amd64 (1.43.5-1) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libfdisk1_2.29.2-2_amd64.deb ... Unpacking libfdisk1:amd64 (2.29.2-2) over (2.29.2-1) ... Setting up libfdisk1:amd64 (2.29.2-2) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libpcre3_2%3a8.39-4_amd64.deb ... Unpacking libpcre3:amd64 (2:8.39-4) over (2:8.39-3) ... Setting up libpcre3:amd64 (2:8.39-4) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libselinux1_2.6-3+b2_amd64.deb ... Unpacking libselinux1:amd64 (2.6-3+b2) over (2.6-3+b1) ... Setting up libselinux1:amd64 (2.6-3+b2) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libmount1_2.29.2-2_amd64.deb ... Unpacking libmount1:amd64 (2.29.2-2) over (2.29.2-1) ... Setting up libmount1:amd64 (2.29.2-2) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.29.2-2_amd64.deb ... Unpacking libsmartcols1:amd64 (2.29.2-2) over (2.29.2-1) ... Setting up libsmartcols1:amd64 (2.29.2-2) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libss2_1.43.5-1_amd64.deb ... Unpacking libss2:amd64 (1.43.5-1) over (1.43.4-2) ... Setting up libss2:amd64 (1.43.5-1) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../sensible-utils_0.0.9+nmu1_all.deb ... Unpacking sensible-utils (0.0.9+nmu1) over (0.0.9) ... Setting up sensible-utils (0.0.9+nmu1) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libudev1_234-2_amd64.deb ... Unpacking libudev1:amd64 (234-2) over (232-25+deb9u1) ... Setting up libudev1:amd64 (234-2) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libdb5.3_5.3.28-13_amd64.deb ... Unpacking libdb5.3:amd64 (5.3.28-13) over (5.3.28-12+b1) ... Setting up libdb5.3:amd64 (5.3.28-13) ... (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 ... 4515 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a2.7.7-1_all.deb ... Unpacking libaudit-common (1:2.7.7-1) over (1:2.6.7-2) ... Setting up libaudit-common (1:2.7.7-1) ... (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 ... 4515 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.7.7-1+b2_amd64.deb ... Unpacking libaudit1:amd64 (1:2.7.7-1+b2) over (1:2.6.7-2) ... Setting up libaudit1:amd64 (1:2.7.7-1+b2) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.229_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.229) over (0.227) ... Setting up libdebconfclient0:amd64 (0.229) ... (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 ... 4516 files and directories currently installed.) Preparing to unpack .../libsemanage1_2.6-2+b1_amd64.deb ... Unpacking libsemanage1:amd64 (2.6-2+b1) over (2.6-2) ... Setting up libsemanage1:amd64 (2.6-2+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 ... 4517 files and directories currently installed.) Preparing to unpack .../0-libgomp1_7.1.0-10_amd64.deb ... Unpacking libgomp1:amd64 (7.1.0-10) over (6.3.0-18) ... Preparing to unpack .../1-gcc-6-base_6.4.0-1_amd64.deb ... Unpacking gcc-6-base:amd64 (6.4.0-1) over (6.3.0-18) ... Preparing to unpack .../2-multiarch-support_2.24-12_amd64.deb ... Unpacking multiarch-support (2.24-12) over (2.24-11+deb9u1) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../3-libssl1.1_1.1.0f-4_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.0f-4) ... Selecting previously unselected package openssl. Preparing to unpack .../4-openssl_1.1.0f-4_amd64.deb ... Unpacking openssl (1.1.0f-4) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../5-ca-certificates_20161130+nmu1_all.deb ... Unpacking ca-certificates (20161130+nmu1) ... Setting up libgomp1:amd64 (7.1.0-10) ... Setting up multiarch-support (2.24-12) ... Setting up gcc-6-base:amd64 (6.4.0-1) ... Processing triggers for libc-bin (2.24-12) ... Setting up libssl1.1:amd64 (1.1.0f-4) ... Setting up openssl (1.1.0f-4) ... Setting up ca-certificates (20161130+nmu1) ... Updating certificates in /etc/ssl/certs... 166 added, 0 removed; done. Processing triggers for libc-bin (2.24-12) ... Processing triggers for ca-certificates (20161130+nmu1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m22.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-yf', 'dist-upgrade'] 0m22.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m23.0s DUMP: 777760d40f3addaf1e9b983c87ed00ef - 0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'show', 'apbs'] 0m23.0s DUMP: Package: apbs Source: apbs (1.4-1) Version: 1.4-1+b1 Installed-Size: 617 Maintainer: Debichem Team Architecture: amd64 Depends: libc6 (>= 2.14), libgomp1 (>= 4.9), libmaloc1 (>= 0.2-1), zlib1g (>= 1:1.1.4) Description-en: Adaptive Poisson Boltzmann Solver APBS is a software package for the numerical solution of the Poisson-Boltzmann equation (PBE), one of the most popular continuum models for describing electrostatic interactions between molecular solutes in salty, aqueous media. Continuum electrostatics plays an important role in several areas of biomolecular simulation, including: . * simulation of diffusional processes to determine ligand-protein and protein-protein binding kinetics, * implicit solvent molecular dynamics of biomolecules , * solvation and binding energy calculations to determine ligand-protein and protein-protein equilibrium binding constants and aid in rational drug design, * and biomolecular titration studies. . APBS was designed to efficiently evaluate electrostatic properties for such simulations for a wide range of length scales to enable the investigation of molecules with tens to millions of atoms. Description-md5: 2f4ced7db86ccb9883d2869243d89809 Homepage: http://apbs.sourceforge.net Section: science Priority: optional Filename: pool/main/a/apbs/apbs_1.4-1+b1_amd64.deb Size: 218476 MD5sum: ac8e677578405e4090a772e19437a492 SHA256: 5d69d5bc8f0f0180c3ee230c42a27e5dc6f8df73b8dde416cfe25f7949d3ea69 0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'show', 'apbs'] 0m23.0s INFO: apt-cache knows about the following packages: apbs 0m23.0s INFO: Running scripts pre_install 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_database-server'] 0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_database-server'] 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_exceptions'] 0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_exceptions'] 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_extras'] 0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_extras'] 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture'] 0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture'] 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy'] 0m23.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://mirror-ubc.debian.org/debian buster/main amd64 Packages release o=Debian,a=testing,n=buster,l=Debian,c=main,b=amd64 origin mirror-ubc.debian.org Pinned packages: 0m23.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy'] 0m23.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy', 'apbs'] 0m23.1s DUMP: apbs: Installed: 1.4-1+b1 Candidate: 1.4-1+b1 Version table: *** 1.4-1+b1 500 500 http://mirror-ubc.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 0m23.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy', 'apbs'] 0m23.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-y', 'install', 'apbs'] 0m23.3s DUMP: Reading package lists... Building dependency tree... Reading state information... apbs is already the newest version (1.4-1+b1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m23.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-y', 'install', 'apbs'] 0m23.3s INFO: Running scripts post_install 0m23.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_install_exceptions'] 0m23.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_install_exceptions'] 0m23.3s INFO: Running scripts post_distupgrade 0m23.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m23.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m23.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_exceptions'] 0m23.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_exceptions'] 0m23.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m23.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m23.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m23.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m23.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_zz_backports'] 0m23.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_distupgrade_zz_backports'] 0m23.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m23.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m23.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m23.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m23.9s INFO: Running scripts pre_install 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_database-server'] 0m23.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_database-server'] 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_exceptions'] 0m23.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_exceptions'] 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_extras'] 0m23.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_extras'] 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture'] 0m23.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture'] 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m23.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m23.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy'] 0m24.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://mirror-ubc.debian.org/debian buster/main amd64 Packages release o=Debian,a=testing,n=buster,l=Debian,c=main,b=amd64 origin mirror-ubc.debian.org Pinned packages: 0m24.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy'] 0m24.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy', 'apbs'] 0m24.0s DUMP: apbs: Installed: 1.4-1+b1 Candidate: 1.4-1+b1 Version table: *** 1.4-1+b1 500 500 http://mirror-ubc.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 0m24.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-cache', 'policy', 'apbs'] 0m24.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-y', 'install', 'apbs=1.4-1+b1'] 0m24.4s DUMP: Reading package lists... Building dependency tree... Reading state information... apbs is already the newest version (1.4-1+b1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', '-y', 'install', 'apbs=1.4-1+b1'] 0m24.4s INFO: Running scripts post_install 0m24.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_install_exceptions'] 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_install_exceptions'] 0m24.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m24.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m24.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m24.6s DUMP: install ok installed adduser adduser 3.115 install ok installed apbs apbs 1.4-1+b1 install ok installed apt apt 1.5~beta1 install ok installed base-files base-files 10 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bsdutils bsdutils 1:2.29.2-2 install ok installed ca-certificates ca-certificates 20161130+nmu1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.5 install ok installed debconf debconf 1.5.63 install ok installed debian-archive-keyring debian-archive-keyring 2017.5 install ok installed debianutils debianutils 4.8.2 install ok installed diffutils diffutils 1:3.6-1 install ok installed dpkg dpkg 1.18.24 install ok installed e2fslibs:amd64 e2fslibs 1.43.5-1 install ok installed e2fsprogs e2fsprogs 1.43.5-1 install ok installed findutils findutils 4.6.0+git+20170729-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.4.0-1 install ok installed gcc-7-base:amd64 gcc-7-base 7.1.0-10 install ok installed gpgv gpgv 2.1.18-8 install ok installed grep grep 3.1-2 install ok installed gzip gzip 1.6-5+b1 install ok installed hostname hostname 3.18+b1 install ok installed init-system-helpers init-system-helpers 1.49 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.5~beta1 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.7.7-1 install ok installed libaudit1:amd64 libaudit1 1:2.7.7-1+b2 install ok installed libblkid1:amd64 libblkid1 2.29.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-12 install ok installed libc6:amd64 libc6 2.24-12 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.5-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-13 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.229 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-2 install ok installed libffi6:amd64 libffi6 3.2.1-6 install ok installed libgcc1:amd64 libgcc1 1:7.1.0-10 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.8-2 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-1 install ok installed libgnutls30:amd64 libgnutls30 3.5.14-2 install ok installed libgomp1:amd64 libgomp1 7.1.0-10 install ok installed libgpg-error0:amd64 libgpg-error0 1.27-3 install ok installed libhogweed4:amd64 libhogweed4 3.3-1+b1 install ok installed libidn2-0:amd64 libidn2-0 2.0.2-1 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+b1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.3 install ok installed libmaloc1 libmaloc1 0.2-3.1 install ok installed libmount1:amd64 libmount1 2.29.2-2 install ok installed libncursesw5:amd64 libncursesw5 6.0+20170715-2 install ok installed libnettle6:amd64 libnettle6 3.3-1+b1 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.7-3 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.6 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.6 install ok installed libpam-runtime libpam-runtime 1.1.8-3.6 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.6 install ok installed libpcre3:amd64 libpcre3 2:8.39-4 install ok installed libselinux1:amd64 libselinux1 2.6-3+b2 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2+b1 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-2 install ok installed libss2:amd64 libss2 1.43.5-1 install ok installed libssl1.1:amd64 libssl1.1 1.1.0f-4 install ok installed libstdc++6:amd64 libstdc++6 7.1.0-10 install ok installed libsystemd0:amd64 libsystemd0 234-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.12-2.1 install ok installed libtinfo5:amd64 libtinfo5 6.0+20170715-2 install ok installed libudev1:amd64 libudev1 234-2 install ok installed libunistring2:amd64 libunistring2 0.9.7-2 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-2 install ok installed login login 1:4.4-4.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.29.2-2 install ok installed multiarch-support multiarch-support 2.24-12 install ok installed ncurses-base ncurses-base 6.0+20170715-2 install ok installed ncurses-bin ncurses-bin 6.0+20170715-2 install ok installed openssl openssl 1.1.0f-4 install ok installed passwd passwd 1:4.4-4.1 install ok installed perl-base perl-base 5.26.0-5 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+nmu1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-2 install ok installed util-linux util-linux 2.29.2-2 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5 0m24.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m24.9s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpiU68xN', '-ac', '--ignore-obsolete'] 0m25.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpiU68xN', '-ac', '--ignore-obsolete'] 0m25.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m25.5s DUMP: 0.15.1 0m25.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m25.5s INFO: Running adequate version 0.15.1 now. 0m25.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apbs'] 0m25.6s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apbs'] 0m25.6s INFO: Running scripts pre_remove 0m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m25.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m25.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m26.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m26.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m26.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m26.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m26.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m26.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_exceptions'] 0m26.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/pre_remove_exceptions'] 0m26.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', 'remove', 'libgomp1:amd64', 'libmaloc1', 'apbs'] 0m26.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: apbs libgomp1 libmaloc1 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. After this operation, 1000 kB 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 ... 4816 files and directories currently installed.) Removing apbs (1.4-1+b1) ... Removing libgomp1:amd64 (7.1.0-10) ... Removing libmaloc1 (0.2-3.1) ... Processing triggers for libc-bin (2.24-12) ... 0m26.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', 'remove', 'libgomp1:amd64', 'libmaloc1', 'apbs'] 0m26.9s INFO: Running scripts post_remove 0m26.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_remove_exceptions'] 0m26.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_remove_exceptions'] 0m26.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg', '--purge', 'libgomp1:amd64', 'libmaloc1'] 0m27.0s DUMP: dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libmaloc1 which isn't installed 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg', '--purge', 'libgomp1:amd64', 'libmaloc1'] 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg', '--purge', 'apbs'] 0m27.0s DUMP: dpkg: warning: ignoring request to remove apbs which isn't installed 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg', '--purge', 'apbs'] 0m27.0s INFO: Running scripts post_purge 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_purge_exceptions'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_purge_exceptions'] 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg', '--purge', '--pending'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg', '--purge', '--pending'] 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg', '--remove', '--pending'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg', '--remove', '--pending'] 0m27.0s INFO: Running scripts post_test 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_test_exceptions'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'tmp/scripts/post_test_exceptions'] 0m27.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m27.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg-divert', '--list'] 0m27.3s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m27.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'dpkg-divert', '--list'] 0m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', 'clean'] 0m27.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiU68xN', 'apt-get', 'clean'] 0m27.3s DEBUG: Recording chroot state 0m28.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/shm'] 0m28.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/shm'] 0m28.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/console'] 0m28.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/console'] 0m28.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/ptmx'] 0m28.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/ptmx'] 0m28.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/pts'] 0m28.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/dev/pts'] 0m28.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/proc'] 0m28.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiU68xN/proc'] 0m28.5s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m28.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpiU68xN'] 0m28.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpiU68xN 0m28.5s INFO: PASS: Upgrading between Debian distributions. 0m28.5s INFO: PASS: All tests. 0m28.5s INFO: piuparts run ends. ret=0 End: 2017-08-15 06:52:00 UTC