Start: 2023-04-14 04:43:07 GMT [stretch] [stretch-backports] Package: seqsero Version: 1.0-2~bpo9+1 Installed-Size: 3487 Maintainer: Debian Med Packaging Team Architecture: all Depends: python:any (>= 2.7.5-5~), python-biopython, bwa, samtools, sra-toolkit Suggests: ispcr Description: Salmonella serotyping from genome sequencing data Homepage: https://github.com/denglab/SeqSero Description-md5: 8a40b6660777f02ab6eed37f09c29dc5 Section: science Priority: optional Filename: pool/main/s/seqsero/seqsero_1.0-2~bpo9+1_all.deb Size: 355706 MD5sum: 0e7b80c5c8251f648521e26ab5702449 SHA256: ab471afd9d4edc59bb189186e4b2468a4ef714caa72a9e893a443f7a17503896 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 --skip-logrotatefiles-test --warn-on-debsums-errors --mirror 'http://deb.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 stretch-backports -B /srv/piuparts.debian.org/slave/refchroot/stretch2bpo/reference-chroot-metadata.dat --apt 'seqsero=1.0-2~bpo9+1' 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 1.1.5 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 --skip-logrotatefiles-test --warn-on-debsums-errors --mirror 'http://deb.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 stretch-backports -B /srv/piuparts.debian.org/slave/refchroot/stretch2bpo/reference-chroot-metadata.dat --apt 'seqsero=1.0-2~bpo9+1' 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp373rd__w 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp373rd__w 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp373rd__w', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp373rd__w', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp373rd__w/proc'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp373rd__w/proc'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/pts'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/pts'] 0m1.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/ptmx'] 0m1.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/ptmx'] 0m1.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/console'] 0m1.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/console'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/shm'] 0m1.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/shm'] 0m1.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main 0m1.4s DEBUG: Created policy-rc.d and chmodded it. 0m1.4s DEBUG: Created resolv.conf. 0m1.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp373rd__w/tmp/scripts/ 0m1.4s INFO: Running scripts post_chroot_unpack 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', 'update'] 0m2.2s DUMP: Ign:1 http://deb.debian.org/debian stretch InRelease Hit:2 http://deb.debian.org/debian stretch Release Reading package lists... 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', 'update'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.9s DUMP: 660e5103244a20b75ca08c3f8741e16e - 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.9s INFO: Running scripts post_setup 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_dummy_users'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_dummy_users'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_forbid_home'] 0m3.6s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_forbid_home'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.6s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_minimize'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_minimize'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_zz_backports'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_setup_zz_backports'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.7s DUMP: install ok installed adduser adduser 3.115 install ok installed apt apt 1.4.10 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.4 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u1 install ok installed debianutils debianutils 4.8.1.1 install ok installed diffutils diffutils 1:3.5-3 install ok installed dpkg dpkg 1.18.25 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u1 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u1 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed grep grep 2.27-2 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 1.48 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.10 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.4-2+deb9u1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+b1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+b1 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 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 2:8.39-3 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u1 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u12 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libudev1:amd64 libudev1 232-25+deb9u12 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 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 2.29.2-1+deb9u1 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed passwd passwd 1:4.4-4.1 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-1.1 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.7s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stretch2bpo/reference-chroot-metadata.dat 0m3.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m4.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m4.1s INFO: Running scripts is_testable 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/is_testable_uninstallable'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/is_testable_uninstallable'] 0m4.1s INFO: Running scripts pre_test 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_test_exceptions'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_test_exceptions'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_test_root_password'] 0m4.2s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_test_root_password'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'show', '--no-all-versions', 'seqsero'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'show', '--no-all-versions', 'seqsero'] 0m4.3s INFO: apt-cache does not know about any of the requested packages 0m4.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m4.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m4.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp373rd__w to stretch-backports 0m4.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main deb http://security.debian.org stretch/updates main deb http://deb.debian.org/debian/ stretch-backports main 0m4.6s INFO: Running scripts pre_distupgrade 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_exceptions'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_exceptions'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', 'update'] 0m6.0s DUMP: Get:1 http://security.debian.org stretch/updates InRelease [59.1 kB] Ign:2 http://deb.debian.org/debian stretch InRelease Get:3 http://deb.debian.org/debian stretch-backports InRelease [78.5 kB] Hit:4 http://deb.debian.org/debian stretch Release Get:5 http://security.debian.org stretch/updates/main amd64 Packages [782 kB] Get:6 http://security.debian.org stretch/updates/main Translation-en [368 kB] Get:7 http://deb.debian.org/debian stretch-backports/main amd64 Packages [612 kB] Get:8 http://deb.debian.org/debian stretch-backports/main Translation-en [467 kB] Fetched 2367 kB in 0s (3538 kB/s) Reading package lists... 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', 'update'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', '-yf', 'dist-upgrade'] 0m8.6s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: apt debian-archive-keyring dpkg e2fslibs e2fsprogs gzip libapt-pkg5.0 libcomerr2 libgcrypt20 liblz4-1 liblzma5 libss2 libsystemd0 libudev1 login passwd tar zlib1g 18 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 9594 kB of archives. After this operation, 50.2 kB of additional disk space will be used. Get:1 http://security.debian.org stretch/updates/main amd64 tar amd64 1.29b-1.1+deb9u1 [760 kB] Get:2 http://security.debian.org stretch/updates/main amd64 dpkg amd64 1.18.26 [2117 kB] Get:3 http://security.debian.org stretch/updates/main amd64 e2fslibs amd64 1.43.4-2+deb9u2 [208 kB] Get:4 http://security.debian.org stretch/updates/main amd64 e2fsprogs amd64 1.43.4-2+deb9u2 [948 kB] Get:5 http://security.debian.org stretch/updates/main amd64 gzip amd64 1.6-5+deb9u1 [114 kB] Get:6 http://security.debian.org stretch/updates/main amd64 login amd64 1:4.4-4.1+deb9u1 [790 kB] Get:7 http://security.debian.org stretch/updates/main amd64 debian-archive-keyring all 2017.5+deb9u2 [92.4 kB] Get:8 http://security.debian.org stretch/updates/main amd64 liblz4-1 amd64 0.0~r131-2+deb9u1 [33.2 kB] Get:9 http://security.debian.org stretch/updates/main amd64 liblzma5 amd64 5.2.2-1.2+deb9u1 [234 kB] Get:10 http://security.debian.org stretch/updates/main amd64 zlib1g amd64 1:1.2.8.dfsg-5+deb9u1 [87.8 kB] Get:11 http://security.debian.org stretch/updates/main amd64 libapt-pkg5.0 amd64 1.4.11 [917 kB] Get:12 http://security.debian.org stretch/updates/main amd64 apt amd64 1.4.11 [1232 kB] Get:13 http://security.debian.org stretch/updates/main amd64 libsystemd0 amd64 232-25+deb9u14 [282 kB] Get:14 http://security.debian.org stretch/updates/main amd64 libcomerr2 amd64 1.43.4-2+deb9u2 [63.8 kB] Get:15 http://security.debian.org stretch/updates/main amd64 libss2 amd64 1.43.4-2+deb9u2 [68.0 kB] Get:16 http://security.debian.org stretch/updates/main amd64 passwd amd64 1:4.4-4.1+deb9u1 [997 kB] Get:17 http://security.debian.org stretch/updates/main amd64 libudev1 amd64 232-25+deb9u14 [126 kB] Get:18 http://security.debian.org stretch/updates/main amd64 libgcrypt20 amd64 1.7.6-2+deb9u4 [523 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9594 kB in 0s (72.3 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 ... 4411 files and directories currently installed.) Preparing to unpack .../tar_1.29b-1.1+deb9u1_amd64.deb ... Unpacking tar (1.29b-1.1+deb9u1) over (1.29b-1.1) ... Setting up tar (1.29b-1.1+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 ... 4411 files and directories currently installed.) Preparing to unpack .../dpkg_1.18.26_amd64.deb ... Unpacking dpkg (1.18.26) over (1.18.25) ... Setting up dpkg (1.18.26) ... (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 .../e2fslibs_1.43.4-2+deb9u2_amd64.deb ... Unpacking e2fslibs:amd64 (1.43.4-2+deb9u2) over (1.43.4-2+deb9u1) ... Setting up e2fslibs:amd64 (1.43.4-2+deb9u2) ... (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 ... 4411 files and directories currently installed.) Preparing to unpack .../libss2_1.43.4-2+deb9u2_amd64.deb ... Unpacking libss2:amd64 (1.43.4-2+deb9u2) over (1.43.4-2+deb9u1) ... Setting up libss2:amd64 (1.43.4-2+deb9u2) ... (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 .../passwd_1%3a4.4-4.1+deb9u1_amd64.deb ... Unpacking passwd (1:4.4-4.1+deb9u1) over (1:4.4-4.1) ... Setting up passwd (1:4.4-4.1+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 ... 4411 files and directories currently installed.) Preparing to unpack .../libudev1_232-25+deb9u14_amd64.deb ... Unpacking libudev1:amd64 (232-25+deb9u14) over (232-25+deb9u12) ... Setting up libudev1:amd64 (232-25+deb9u14) ... (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 .../libgcrypt20_1.7.6-2+deb9u4_amd64.deb ... Unpacking libgcrypt20:amd64 (1.7.6-2+deb9u4) over (1.7.6-2+deb9u3) ... Setting up libgcrypt20:amd64 (1.7.6-2+deb9u4) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... 0m8.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', '-yf', 'dist-upgrade'] 0m8.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.1s DUMP: 46096da5bf28ec6e6c755045e954a64e - 0m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'show', '--no-all-versions', 'seqsero'] 0m9.3s DUMP: Package: seqsero Version: 1.0-2~bpo9+1 Installed-Size: 3487 Maintainer: Debian Med Packaging Team Architecture: all Depends: python:any (>= 2.7.5-5~), python-biopython, bwa, samtools, sra-toolkit Suggests: ispcr Description-en: Salmonella serotyping from genome sequencing data SeqSero is a pipeline for Salmonella serotype determination from raw sequencing reads or genome assemblies. . SeqSero is a novel tool for determining Salmonella serotypes using high- throughput genome sequencing data. SeqSero is based on curated databases of Salmonella serotype determinants (rfb gene cluster, fliC and fljB alleles) and is predicted to determine serotype rapidly and accurately for nearly the full spectrum of Salmonella serotypes (more than 2,300 serotypes), from both raw sequencing reads and genome assemblies. The performance of SeqSero was evaluated by testing 1. raw reads from genomes of 308 Salmonella isolates of known serotype 2. raw reads from genomes of 3,306 Salmonella isolates sequenced and made publicly available by GenomeTrakr, a U.S. national monitoring network operated by the Food and Drug Administration; and 3. 354 other publicly available draft or complete Salmonella genomes. SeqSero can help to maintain the well-established utility of Salmonella serotyping when integrated into a platform of WGS-based pathogen subtyping and characterization. Description-md5: 8a40b6660777f02ab6eed37f09c29dc5 Homepage: https://github.com/denglab/SeqSero Section: science Priority: optional Filename: pool/main/s/seqsero/seqsero_1.0-2~bpo9+1_all.deb Size: 355706 MD5sum: 0e7b80c5c8251f648521e26ab5702449 SHA256: ab471afd9d4edc59bb189186e4b2468a4ef714caa72a9e893a443f7a17503896 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'show', '--no-all-versions', 'seqsero'] 0m9.3s INFO: apt-cache knows about the following packages: seqsero 0m9.3s INFO: Running scripts pre_install 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_database-server'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_database-server'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_exceptions'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_exceptions'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_extras'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_extras'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'policy'] 0m9.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 100 http://deb.debian.org/debian stretch-backports/main amd64 Packages release o=Debian Backports,a=stretch-backports,n=stretch-backports,l=Debian Backports,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org stretch/updates/main amd64 Packages release v=9,o=Debian,a=oldoldstable,n=stretch,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'policy'] 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'policy', 'seqsero'] 0m9.5s DUMP: seqsero: Installed: (none) Candidate: 1.0-2~bpo9+1 Version table: 1.0-2~bpo9+1 100 100 http://deb.debian.org/debian stretch-backports/main amd64 Packages 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'policy', 'seqsero'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', '-y', '-t', 'stretch-backports', 'install', 'seqsero'] 0m18.2s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: bwa libaec0 libblas-common libblas3 libcurl3-gnutls libexpat1 libffi6 libfuse2 libgfortran3 libgmp10 libgnutls30 libgssapi-krb5-2 libhdf5-100 libhogweed4 libhts2 libicu57 libidn11 libidn2-0 libk5crypto3 libkdf5-2 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libmbedcrypto0 libmbedtls-dev libmbedtls10 libmbedx509-0 libncbi-vdb2 libncbi-wvdb2 libncurses5 libnettle6 libnghttp2-14 libp11-kit0 libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl1.1 libsz2 libtasn1-6 libunistring0 libxml2 mime-support python python-biopython python-minimal python-numpy python-reportlab python-reportlab-accel python2.7 python2.7-minimal readline-common samtools sra-toolkit Suggested packages: fuse gnutls-bin krb5-doc krb5-user file libmbedtls-doc python-doc python-tk clustalo clustalw dialign dssp emboss fasttree mafft muscle phylip phyml prank probcons python-mysqldb python-matplotlib python-pil python-rdflib python-renderpm python-psycopg2 python-scipy raxml t-coffee wise gcc gfortran python-dev python-nose python-numpy-dbg python-numpy-doc pdf-viewer python-egenix-mxtexttools python-reportlab-doc python2.7-doc binutils binfmt-support readline-doc ispcr Recommended packages: ca-certificates krb5-locales libgpm2 publicsuffix libsasl2-modules xml-core bzip2 file xz-utils python-biopython-doc ncbi-blast+ python-renderpm python-pil cwltool med-config The following NEW packages will be installed: bwa libaec0 libblas-common libblas3 libcurl3-gnutls libexpat1 libffi6 libfuse2 libgfortran3 libgmp10 libgnutls30 libgssapi-krb5-2 libhdf5-100 libhogweed4 libhts2 libicu57 libidn11 libidn2-0 libk5crypto3 libkdf5-2 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libmbedcrypto0 libmbedtls-dev libmbedtls10 libmbedx509-0 libncbi-vdb2 libncbi-wvdb2 libncurses5 libnettle6 libnghttp2-14 libp11-kit0 libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl1.1 libsz2 libtasn1-6 libunistring0 libxml2 mime-support python python-biopython python-minimal python-numpy python-reportlab python-reportlab-accel python2.7 python2.7-minimal readline-common samtools seqsero sra-toolkit 0 upgraded, 67 newly installed, 0 to remove and 10 not upgraded. Need to get 32.5 MB of archives. After this operation, 132 MB of additional disk space will be used. Get:1 http://security.debian.org stretch/updates/main amd64 libpython2.7-minimal amd64 2.7.13-2+deb9u6 [390 kB] Get:2 http://deb.debian.org/debian stretch/main amd64 python-minimal amd64 2.7.13-2 [40.5 kB] Get:3 http://security.debian.org stretch/updates/main amd64 python2.7-minimal amd64 2.7.13-2+deb9u6 [1382 kB] Get:4 http://deb.debian.org/debian stretch/main amd64 mime-support all 3.60 [36.7 kB] Get:5 http://deb.debian.org/debian stretch/main amd64 libffi6 amd64 3.2.1-6 [20.4 kB] Get:6 http://deb.debian.org/debian stretch/main amd64 readline-common all 7.0-3 [70.4 kB] Get:7 http://security.debian.org stretch/updates/main amd64 libexpat1 amd64 2.2.0-2+deb9u5 [84.7 kB] Get:8 http://security.debian.org stretch/updates/main amd64 libssl1.1 amd64 1.1.0l-1~deb9u6 [1360 kB] Get:9 http://deb.debian.org/debian stretch/main amd64 libreadline7 amd64 7.0-3 [151 kB] Get:10 http://deb.debian.org/debian stretch-backports/main amd64 libsqlite3-0 amd64 3.27.2-3~bpo9+1 [638 kB] Get:11 http://deb.debian.org/debian stretch/main amd64 libpython-stdlib amd64 2.7.13-2 [20.0 kB] Get:12 http://deb.debian.org/debian stretch/main amd64 python amd64 2.7.13-2 [154 kB] Get:13 http://deb.debian.org/debian stretch/main amd64 libidn11 amd64 1.33-1+deb9u1 [115 kB] Get:14 http://deb.debian.org/debian stretch/main amd64 libtasn1-6 amd64 4.10-1.1+deb9u1 [50.6 kB] Get:15 http://deb.debian.org/debian stretch/main amd64 libkeyutils1 amd64 1.5.9-9 [12.4 kB] Get:16 http://deb.debian.org/debian stretch-backports/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u2~bpo9+1 [89.8 kB] Get:17 http://security.debian.org stretch/updates/main amd64 libpython2.7-stdlib amd64 2.7.13-2+deb9u6 [1898 kB] Get:18 http://deb.debian.org/debian stretch-backports/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u2~bpo9+1 [223 kB] Get:19 http://deb.debian.org/debian stretch/main amd64 libmagic-mgc amd64 1:5.30-1+deb9u3 [222 kB] Get:20 http://deb.debian.org/debian stretch/main amd64 libmagic1 amd64 1:5.30-1+deb9u3 [111 kB] Get:21 http://deb.debian.org/debian stretch-backports/main amd64 bwa amd64 0.7.17-1~bpo9+1 [196 kB] Get:22 http://deb.debian.org/debian stretch/main amd64 libaec0 amd64 0.3.2-1 [18.5 kB] Get:23 http://deb.debian.org/debian stretch/main amd64 libblas-common amd64 3.7.0-2 [14.2 kB] Get:24 http://deb.debian.org/debian stretch/main amd64 libquadmath0 amd64 6.3.0-18+deb9u1 [131 kB] Get:25 http://deb.debian.org/debian stretch/main amd64 libgfortran3 amd64 6.3.0-18+deb9u1 [265 kB] Get:26 http://deb.debian.org/debian stretch/main amd64 libblas3 amd64 3.7.0-2 [155 kB] Get:27 http://deb.debian.org/debian stretch/main amd64 libunistring0 amd64 0.9.6+really0.9.3-0.1 [279 kB] Get:28 http://security.debian.org stretch/updates/main amd64 python2.7 amd64 2.7.13-2+deb9u6 [286 kB] Get:29 http://security.debian.org stretch/updates/main amd64 libgmp10 amd64 2:6.1.2+dfsg-1+deb9u1 [253 kB] Get:30 http://deb.debian.org/debian stretch-backports/main amd64 libidn2-0 amd64 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1.7-2~bpo9+1 [310 kB] Get:41 http://security.debian.org stretch/updates/main amd64 libkrb5support0 amd64 1.15-1+deb9u3 [62.3 kB] Get:42 http://security.debian.org stretch/updates/main amd64 libk5crypto3 amd64 1.15-1+deb9u3 [120 kB] Get:43 http://deb.debian.org/debian stretch/main amd64 libkdf5-2 amd64 2.8.1+dfsg-2 [13.6 kB] Get:44 http://security.debian.org stretch/updates/main amd64 libkrb5-3 amd64 1.15-1+deb9u3 [312 kB] Get:45 http://deb.debian.org/debian stretch/main amd64 liblapack3 amd64 3.7.0-2 [2141 kB] Get:46 http://security.debian.org stretch/updates/main amd64 libgssapi-krb5-2 amd64 1.15-1+deb9u3 [155 kB] Get:47 http://security.debian.org stretch/updates/main amd64 libsasl2-modules-db amd64 2.1.27~101-g0780600+dfsg-3+deb9u2 [68.5 kB] Get:48 http://security.debian.org stretch/updates/main amd64 libsasl2-2 amd64 2.1.27~101-g0780600+dfsg-3+deb9u2 [105 kB] Get:49 http://security.debian.org stretch/updates/main amd64 libicu57 amd64 57.1-6+deb9u5 [7700 kB] Get:50 http://deb.debian.org/debian stretch/main amd64 libncbi-vdb2 amd64 2.8.1+dfsg-2 [1037 kB] Get:51 http://security.debian.org stretch/updates/main amd64 libxml2 amd64 2.9.4+dfsg1-2.2+deb9u7 [920 kB] Get:52 http://security.debian.org stretch/updates/main amd64 libnghttp2-14 amd64 1.18.1-1+deb9u2 [79.4 kB] Get:53 http://security.debian.org stretch/updates/main amd64 libssh2-1 amd64 1.7.0-1+deb9u2 [139 kB] Get:54 http://security.debian.org stretch/updates/main amd64 libcurl3-gnutls amd64 7.52.1-5+deb9u16 [296 kB] Get:55 http://security.debian.org stretch/updates/main amd64 libmbedcrypto0 amd64 2.4.2-1+deb9u4 [172 kB] Get:56 http://security.debian.org stretch/updates/main amd64 libmbedx509-0 amd64 2.4.2-1+deb9u4 [71.0 kB] Get:57 http://security.debian.org stretch/updates/main amd64 libmbedtls10 amd64 2.4.2-1+deb9u4 [102 kB] Get:58 http://security.debian.org stretch/updates/main amd64 libmbedtls-dev amd64 2.4.2-1+deb9u4 [162 kB] Get:59 http://deb.debian.org/debian stretch/main amd64 libncbi-wvdb2 amd64 2.8.1+dfsg-2 [939 kB] Get:60 http://deb.debian.org/debian stretch/main amd64 libncurses5 amd64 6.0+20161126-1+deb9u2 [93.4 kB] Get:61 http://deb.debian.org/debian stretch/main amd64 python-numpy amd64 1:1.12.1-3 [1936 kB] Get:62 http://deb.debian.org/debian stretch/main amd64 python-reportlab-accel amd64 3.3.0-2+deb9u1 [36.8 kB] Get:63 http://deb.debian.org/debian stretch/main amd64 python-reportlab all 3.3.0-2+deb9u1 [478 kB] Get:64 http://deb.debian.org/debian stretch/main amd64 python-biopython amd64 1.68+dfsg-3 [1201 kB] Get:65 http://deb.debian.org/debian stretch-backports/main amd64 samtools amd64 1.7-2~bpo9+1 [409 kB] Get:66 http://deb.debian.org/debian stretch/main amd64 sra-toolkit amd64 2.8.1-2+dfsg-2 [1487 kB] Get:67 http://deb.debian.org/debian stretch-backports/main amd64 seqsero all 1.0-2~bpo9+1 [356 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 32.5 MB in 0s (41.4 MB/s) Selecting previously unselected package 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Preparing to unpack .../46-libncurses5_6.0+20161126-1+deb9u2_amd64.deb ... Unpacking libncurses5:amd64 (6.0+20161126-1+deb9u2) ... Selecting previously unselected package python-numpy. Preparing to unpack .../47-python-numpy_1%3a1.12.1-3_amd64.deb ... Unpacking python-numpy (1:1.12.1-3) ... Selecting previously unselected package python-reportlab-accel:amd64. Preparing to unpack .../48-python-reportlab-accel_3.3.0-2+deb9u1_amd64.deb ... Unpacking python-reportlab-accel:amd64 (3.3.0-2+deb9u1) ... Selecting previously unselected package python-reportlab. Preparing to unpack .../49-python-reportlab_3.3.0-2+deb9u1_all.deb ... Unpacking python-reportlab (3.3.0-2+deb9u1) ... Selecting previously unselected package python-biopython. Preparing to unpack .../50-python-biopython_1.68+dfsg-3_amd64.deb ... Unpacking python-biopython (1.68+dfsg-3) ... Selecting previously unselected package samtools. Preparing to unpack .../51-samtools_1.7-2~bpo9+1_amd64.deb ... Unpacking samtools (1.7-2~bpo9+1) ... Selecting previously unselected package sra-toolkit. Preparing to unpack .../52-sra-toolkit_2.8.1-2+dfsg-2_amd64.deb ... Unpacking sra-toolkit (2.8.1-2+dfsg-2) ... Selecting previously unselected package seqsero. Preparing to unpack .../53-seqsero_1.0-2~bpo9+1_all.deb ... Unpacking seqsero (1.0-2~bpo9+1) ... Setting up libquadmath0:amd64 (6.3.0-18+deb9u1) ... Setting up libncurses5:amd64 (6.0+20161126-1+deb9u2) ... Setting up readline-common (7.0-3) ... Setting up libnettle6:amd64 (3.3-1+deb9u1) ... Setting up libaec0:amd64 (0.3.2-1) ... Setting up libexpat1:amd64 (2.2.0-2+deb9u5) ... Setting up bwa (0.7.17-1~bpo9+1) ... Setting up libnghttp2-14:amd64 (1.18.1-1+deb9u2) ... Setting up mime-support (3.60) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u2~bpo9+1) ... Setting up libreadline7:amd64 (7.0-3) ... Setting up libblas-common (3.7.0-2) ... Setting up libgfortran3:amd64 (6.3.0-18+deb9u1) ... Setting up libfuse2:amd64 (2.9.7-1+deb9u2) ... Setting up libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u2) ... Setting up libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u2) ... Setting up libicu57:amd64 (57.1-6+deb9u5) ... Setting up libxml2:amd64 (2.9.4+dfsg1-2.2+deb9u7) ... Setting up libtasn1-6:amd64 (4.10-1.1+deb9u1) ... Setting up libmagic-mgc (1:5.30-1+deb9u3) ... Setting up libmagic1:amd64 (1:5.30-1+deb9u3) ... Setting up libmbedcrypto0:amd64 (2.4.2-1+deb9u4) ... Setting up libgmp10:amd64 (2:6.1.2+dfsg-1+deb9u1) ... Setting up libblas3 (3.7.0-2) ... update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode Setting up libssh2-1:amd64 (1.7.0-1+deb9u2) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Setting up libunistring0:amd64 (0.9.6+really0.9.3-0.1) ... Setting up libssl1.1:amd64 (1.1.0l-1~deb9u6) ... Setting up libsqlite3-0:amd64 (3.27.2-3~bpo9+1) ... Setting up libncbi-wvdb2 (2.8.1+dfsg-2) ... Setting up libmbedx509-0:amd64 (2.4.2-1+deb9u4) ... Setting up libffi6:amd64 (3.2.1-6) ... Setting up libkeyutils1:amd64 (1.5.9-9) ... Setting up libpython2.7-stdlib:amd64 (2.7.13-2+deb9u6) ... Setting up libidn11:amd64 (1.33-1+deb9u1) ... Setting up libsz2:amd64 (0.3.2-1) ... Setting up libidn2-0:amd64 (2.0.5-1~bpo9+1) ... Setting up libhdf5-100:amd64 (1.10.0-patch1+docs-3+deb9u1) ... Setting up libmbedtls10:amd64 (2.4.2-1+deb9u4) ... Setting up libpsl5:amd64 (0.17.0-3) ... Setting up liblapack3 (3.7.0-2) ... update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode Setting up python2.7 (2.7.13-2+deb9u6) ... Setting up libncbi-vdb2 (2.8.1+dfsg-2) ... Setting up libkrb5support0:amd64 (1.15-1+deb9u3) ... Setting up libmbedtls-dev:amd64 (2.4.2-1+deb9u4) ... Setting up libhogweed4:amd64 (3.3-1+deb9u1) ... Setting up libpython-stdlib:amd64 (2.7.13-2) ... Setting up libp11-kit0:amd64 (0.23.3-2+deb9u1) ... Setting up python (2.7.13-2) ... Setting up libk5crypto3:amd64 (1.15-1+deb9u3) ... Setting up python-reportlab-accel:amd64 (3.3.0-2+deb9u1) ... Setting up python-reportlab (3.3.0-2+deb9u1) ... Setting up libgnutls30:amd64 (3.5.8-5+deb9u6) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-1+b1) ... Setting up libkdf5-2 (2.8.1+dfsg-2) ... Setting up sra-toolkit (2.8.1-2+dfsg-2) ... Setting up python-numpy (1:1.12.1-3) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u2~bpo9+1) ... Setting up libkrb5-3:amd64 (1.15-1+deb9u3) ... Setting up python-biopython (1.68+dfsg-3) ... Setting up libgssapi-krb5-2:amd64 (1.15-1+deb9u3) ... Setting up libcurl3-gnutls:amd64 (7.52.1-5+deb9u16) ... Setting up libhts2:amd64 (1.7-2~bpo9+1) ... Setting up samtools (1.7-2~bpo9+1) ... Setting up seqsero (1.0-2~bpo9+1) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... 0m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', '-y', '-t', 'stretch-backports', 'install', 'seqsero'] 0m18.2s INFO: Running scripts post_install 0m18.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_install_exceptions'] 0m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_install_exceptions'] 0m18.2s INFO: Running scripts post_distupgrade 0m18.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m18.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_exceptions'] 0m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_exceptions'] 0m18.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m18.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m18.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_zz_backports'] 0m18.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_distupgrade_zz_backports'] 0m18.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m18.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m18.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m19.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m19.1s INFO: Running scripts pre_install 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_database-server'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_database-server'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_exceptions'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_exceptions'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_extras'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_extras'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_foreign_architecture'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_foreign_architecture'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'policy'] 0m19.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 100 http://deb.debian.org/debian stretch-backports/main amd64 Packages release o=Debian Backports,a=stretch-backports,n=stretch-backports,l=Debian Backports,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org stretch/updates/main amd64 Packages release v=9,o=Debian,a=oldoldstable,n=stretch,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m19.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'policy'] 0m19.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'policy', 'seqsero'] 0m19.2s DUMP: seqsero: Installed: 1.0-2~bpo9+1 Candidate: 1.0-2~bpo9+1 Version table: *** 1.0-2~bpo9+1 100 100 http://deb.debian.org/debian stretch-backports/main amd64 Packages 100 /var/lib/dpkg/status 0m19.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-cache', 'policy', 'seqsero'] 0m19.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', '-y', '-t', 'stretch-backports', 'install', 'seqsero=1.0-2~bpo9+1'] 0m19.5s DUMP: Reading package lists... Building dependency tree... Reading state information... seqsero is already the newest version (1.0-2~bpo9+1). 0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded. 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', '-y', '-t', 'stretch-backports', 'install', 'seqsero=1.0-2~bpo9+1'] 0m19.5s INFO: Running scripts post_install 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_install_exceptions'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_install_exceptions'] 0m19.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m19.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m20.3s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp373rd__w', '-ac', '--ignore-obsolete'] 0m21.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp373rd__w', '-ac', '--ignore-obsolete'] 0m21.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m21.1s DUMP: 0.15.6 0m21.1s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m21.1s INFO: Running adequate version 0.15.6 now. 0m21.1s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'seqsero'] 0m21.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'seqsero'] 0m21.2s INFO: Running scripts pre_remove 0m21.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m21.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m21.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m21.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m21.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m23.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m23.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m23.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m23.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m23.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m23.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_exceptions'] 0m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/pre_remove_exceptions'] 0m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m23.2s DUMP: install ok installed adduser adduser 3.115 install ok installed apt apt 1.4.11 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed bwa bwa 0.7.17-1~bpo9+1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.4 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u2 install ok installed debianutils debianutils 4.8.1.1 install ok installed diffutils diffutils 1:3.5-3 install ok installed dpkg dpkg 1.18.26 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u2 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u2 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed grep grep 2.27-2 install ok installed gzip gzip 1.6-5+deb9u1 install ok installed hostname hostname 3.18+b1 install ok installed init-system-helpers init-system-helpers 1.48 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libaec0:amd64 libaec0 0.3.2-1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.11 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libblas-common libblas-common 3.7.0-2 install ok installed libblas3 libblas3 3.7.0-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.4-2+deb9u2 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.52.1-5+deb9u16 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libexpat1:amd64 libexpat1 2.2.0-2+deb9u5 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libffi6:amd64 libffi6 3.2.1-6 install ok installed libfuse2:amd64 libfuse2 2.9.7-1+deb9u2 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u4 install ok installed libgfortran3:amd64 libgfortran3 6.3.0-18+deb9u1 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-1+deb9u1 install ok installed libgnutls30:amd64 libgnutls30 3.5.8-5+deb9u6 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.15-1+deb9u3 install ok installed libhdf5-100:amd64 libhdf5-100 1.10.0-patch1+docs-3+deb9u1 install ok installed libhogweed4:amd64 libhogweed4 3.3-1+deb9u1 install ok installed libhts2:amd64 libhts2 1.7-2~bpo9+1 install ok installed libicu57:amd64 libicu57 57.1-6+deb9u5 install ok installed libidn11:amd64 libidn11 1.33-1+deb9u1 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1~bpo9+1 install ok installed libk5crypto3:amd64 libk5crypto3 1.15-1+deb9u3 install ok installed libkdf5-2 libkdf5-2 2.8.1+dfsg-2 install ok installed libkeyutils1:amd64 libkeyutils1 1.5.9-9 install ok installed libkrb5-3:amd64 libkrb5-3 1.15-1+deb9u3 install ok installed libkrb5support0:amd64 libkrb5support0 1.15-1+deb9u3 install ok installed liblapack3 liblapack3 3.7.0-2 install ok installed libldap-2.4-2:amd64 libldap-2.4-2 2.4.47+dfsg-3+deb10u2~bpo9+1 install ok installed libldap-common libldap-common 2.4.47+dfsg-3+deb10u2~bpo9+1 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+deb9u1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+deb9u1 install ok installed libmagic-mgc libmagic-mgc 1:5.30-1+deb9u3 install ok installed libmagic1:amd64 libmagic1 1:5.30-1+deb9u3 install ok installed libmbedcrypto0:amd64 libmbedcrypto0 2.4.2-1+deb9u4 install ok installed libmbedtls-dev:amd64 libmbedtls-dev 2.4.2-1+deb9u4 install ok installed libmbedtls10:amd64 libmbedtls10 2.4.2-1+deb9u4 install ok installed libmbedx509-0:amd64 libmbedx509-0 2.4.2-1+deb9u4 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libncbi-vdb2 libncbi-vdb2 2.8.1+dfsg-2 install ok installed libncbi-wvdb2 libncbi-wvdb2 2.8.1+dfsg-2 install ok installed libncurses5:amd64 libncurses5 6.0+20161126-1+deb9u2 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 install ok installed libnettle6:amd64 libnettle6 3.3-1+deb9u1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.18.1-1+deb9u2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.3-2+deb9u1 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 2:8.39-3 install ok installed libpsl5:amd64 libpsl5 0.17.0-3 install ok installed libpython-stdlib:amd64 libpython-stdlib 2.7.13-2 install ok installed libpython2.7-minimal:amd64 libpython2.7-minimal 2.7.13-2+deb9u6 install ok installed libpython2.7-stdlib:amd64 libpython2.7-stdlib 2.7.13-2+deb9u6 install ok installed libquadmath0:amd64 libquadmath0 6.3.0-18+deb9u1 install ok installed libreadline7:amd64 libreadline7 7.0-3 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-1+b1 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.27~101-g0780600+dfsg-3+deb9u2 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.27~101-g0780600+dfsg-3+deb9u2 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.27.2-3~bpo9+1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u2 install ok installed libssh2-1:amd64 libssh2-1 1.7.0-1+deb9u2 install ok installed libssl1.1:amd64 libssl1.1 1.1.0l-1~deb9u6 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u14 install ok installed libsz2:amd64 libsz2 0.3.2-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.10-1.1+deb9u1 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libudev1:amd64 libudev1 232-25+deb9u14 install ok installed libunistring0:amd64 libunistring0 0.9.6+really0.9.3-0.1 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 install ok installed libxml2:amd64 libxml2 2.9.4+dfsg1-2.2+deb9u7 install ok installed login login 1:4.4-4.1+deb9u1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mime-support mime-support 3.60 install ok installed mount mount 2.29.2-1+deb9u1 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed passwd passwd 1:4.4-4.1+deb9u1 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed python python 2.7.13-2 install ok installed python-biopython python-biopython 1.68+dfsg-3 install ok installed python-minimal python-minimal 2.7.13-2 install ok installed python-numpy python-numpy 1:1.12.1-3 install ok installed python-reportlab python-reportlab 3.3.0-2+deb9u1 install ok installed python-reportlab-accel:amd64 python-reportlab-accel 3.3.0-2+deb9u1 install ok installed python2.7 python2.7 2.7.13-2+deb9u6 install ok installed python2.7-minimal python2.7-minimal 2.7.13-2+deb9u6 install ok installed readline-common readline-common 7.0-3 install ok installed samtools samtools 1.7-2~bpo9+1 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed seqsero seqsero 1.0-2~bpo9+1 install ok installed sra-toolkit sra-toolkit 2.8.1-2+dfsg-2 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-1.1+deb9u1 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5+deb9u1 0m23.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m23.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', 'remove', 'bwa', 'libaec0:amd64', 'libblas-common', 'libblas3', 'libcurl3-gnutls:amd64', 'libexpat1:amd64', 'libffi6:amd64', 'libfuse2:amd64', 'libgfortran3:amd64', 'libgmp10:amd64', 'libgnutls30:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-100:amd64', 'libhogweed4:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libidn11:amd64', 'libidn2-0:amd64', 'libk5crypto3:amd64', 'libkdf5-2', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3', 'libldap-2.4-2:amd64', 'libldap-common', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto0:amd64', 'libmbedtls-dev:amd64', 'libmbedtls10:amd64', 'libmbedx509-0:amd64', 'libncbi-vdb2', 'libncbi-wvdb2', 'libncurses5:amd64', 'libnettle6:amd64', 'libnghttp2-14:amd64', 'libp11-kit0:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'libsz2:amd64', 'libtasn1-6:amd64', 'libunistring0:amd64', 'libxml2:amd64', 'mime-support', 'python', 'python-biopython', 'python-minimal', 'python-numpy', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2.7', 'python2.7-minimal', 'readline-common', 'samtools', 'sra-toolkit', 'seqsero'] 0m24.3s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bwa libaec0 libblas-common libblas3 libcurl3-gnutls libexpat1 libffi6 libfuse2 libgfortran3 libgmp10 libgnutls30 libgssapi-krb5-2 libhdf5-100 libhogweed4 libhts2 libicu57 libidn11 libidn2-0 libk5crypto3 libkdf5-2 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libmbedcrypto0 libmbedtls-dev libmbedtls10 libmbedx509-0 libncbi-vdb2 libncbi-wvdb2 libncurses5 libnettle6 libnghttp2-14 libp11-kit0 libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl1.1 libsz2 libtasn1-6 libunistring0 libxml2 mime-support python python-biopython python-minimal python-numpy python-reportlab python-reportlab-accel python2.7 python2.7-minimal readline-common samtools seqsero sra-toolkit 0 upgraded, 0 newly installed, 67 to remove and 0 not upgraded. After this operation, 132 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 ... 7273 files and directories currently installed.) Removing seqsero (1.0-2~bpo9+1) ... Removing bwa (0.7.17-1~bpo9+1) ... Removing sra-toolkit (2.8.1-2+dfsg-2) ... Removing libkdf5-2 (2.8.1+dfsg-2) ... Removing libhdf5-100:amd64 (1.10.0-patch1+docs-3+deb9u1) ... Removing libsz2:amd64 (0.3.2-1) ... Removing libaec0:amd64 (0.3.2-1) ... Removing python-biopython (1.68+dfsg-3) ... Removing python-numpy (1:1.12.1-3) ... Removing liblapack3 (3.7.0-2) ... Removing libblas3 (3.7.0-2) ... Removing libblas-common (3.7.0-2) ... Removing samtools (1.7-2~bpo9+1) ... Removing libhts2:amd64 (1.7-2~bpo9+1) ... Removing libcurl3-gnutls:amd64 (7.52.1-5+deb9u16) ... Removing python-reportlab (3.3.0-2+deb9u1) ... Removing python-reportlab-accel:amd64 (3.3.0-2+deb9u1) ... Removing python (2.7.13-2) ... Removing python2.7 (2.7.13-2+deb9u6) ... Removing libpython-stdlib:amd64 (2.7.13-2) ... Removing libpython2.7-stdlib:amd64 (2.7.13-2+deb9u6) ... Removing libexpat1:amd64 (2.2.0-2+deb9u5) ... Removing libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u2~bpo9+1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-1+b1) ... Removing libgnutls30:amd64 (3.5.8-5+deb9u6) ... Removing libp11-kit0:amd64 (0.23.3-2+deb9u1) ... Removing libffi6:amd64 (3.2.1-6) ... Removing libfuse2:amd64 (2.9.7-1+deb9u2) ... Removing libgfortran3:amd64 (6.3.0-18+deb9u1) ... Removing libhogweed4:amd64 (3.3-1+deb9u1) ... Removing libgmp10:amd64 (2:6.1.2+dfsg-1+deb9u1) ... Removing libgssapi-krb5-2:amd64 (1.15-1+deb9u3) ... Removing libncbi-wvdb2 (2.8.1+dfsg-2) ... Removing libncbi-vdb2 (2.8.1+dfsg-2) ... Removing libxml2:amd64 (2.9.4+dfsg1-2.2+deb9u7) ... Removing libicu57:amd64 (57.1-6+deb9u5) ... Removing libidn11:amd64 (1.33-1+deb9u1) ... Removing libpsl5:amd64 (0.17.0-3) ... Removing libidn2-0:amd64 (2.0.5-1~bpo9+1) ... Removing libkrb5-3:amd64 (1.15-1+deb9u3) ... Removing libk5crypto3:amd64 (1.15-1+deb9u3) ... Removing libkrb5support0:amd64 (1.15-1+deb9u3) ... Removing libkeyutils1:amd64 (1.5.9-9) ... Removing libldap-common (2.4.47+dfsg-3+deb10u2~bpo9+1) ... Removing libmagic1:amd64 (1:5.30-1+deb9u3) ... Removing libmagic-mgc (1:5.30-1+deb9u3) ... Removing libmbedtls-dev:amd64 (2.4.2-1+deb9u4) ... Removing libmbedtls10:amd64 (2.4.2-1+deb9u4) ... Removing libmbedx509-0:amd64 (2.4.2-1+deb9u4) ... Removing libmbedcrypto0:amd64 (2.4.2-1+deb9u4) ... Removing libncurses5:amd64 (6.0+20161126-1+deb9u2) ... Removing libnettle6:amd64 (3.3-1+deb9u1) ... Removing libnghttp2-14:amd64 (1.18.1-1+deb9u2) ... Removing python-minimal (2.7.13-2) ... Removing python2.7-minimal (2.7.13-2+deb9u6) ... Removing libpython2.7-minimal:amd64 (2.7.13-2+deb9u6) ... Removing libquadmath0:amd64 (6.3.0-18+deb9u1) ... Removing libreadline7:amd64 (7.0-3) ... Removing libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u2) ... Removing libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u2) ... Removing libsqlite3-0:amd64 (3.27.2-3~bpo9+1) ... Removing libssh2-1:amd64 (1.7.0-1+deb9u2) ... Removing libssl1.1:amd64 (1.1.0l-1~deb9u6) ... Removing libtasn1-6:amd64 (4.10-1.1+deb9u1) ... Removing libunistring0:amd64 (0.9.6+really0.9.3-0.1) ... Removing mime-support (3.60) ... Removing readline-common (7.0-3) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', 'remove', 'bwa', 'libaec0:amd64', 'libblas-common', 'libblas3', 'libcurl3-gnutls:amd64', 'libexpat1:amd64', 'libffi6:amd64', 'libfuse2:amd64', 'libgfortran3:amd64', 'libgmp10:amd64', 'libgnutls30:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-100:amd64', 'libhogweed4:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libidn11:amd64', 'libidn2-0:amd64', 'libk5crypto3:amd64', 'libkdf5-2', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3', 'libldap-2.4-2:amd64', 'libldap-common', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto0:amd64', 'libmbedtls-dev:amd64', 'libmbedtls10:amd64', 'libmbedx509-0:amd64', 'libncbi-vdb2', 'libncbi-wvdb2', 'libncurses5:amd64', 'libnettle6:amd64', 'libnghttp2-14:amd64', 'libp11-kit0:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'libsz2:amd64', 'libtasn1-6:amd64', 'libunistring0:amd64', 'libxml2:amd64', 'mime-support', 'python', 'python-biopython', 'python-minimal', 'python-numpy', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2.7', 'python2.7-minimal', 'readline-common', 'samtools', 'sra-toolkit', 'seqsero'] 0m24.3s INFO: Running scripts post_remove 0m24.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_remove_exceptions'] 0m24.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_remove_exceptions'] 0m24.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg', '--purge', 'bwa', 'libaec0:amd64', 'libblas-common', 'libblas3', 'libcurl3-gnutls:amd64', 'libexpat1:amd64', 'libffi6:amd64', 'libfuse2:amd64', 'libgfortran3:amd64', 'libgmp10:amd64', 'libgnutls30:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-100:amd64', 'libhogweed4:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libidn11:amd64', 'libidn2-0:amd64', 'libk5crypto3:amd64', 'libkdf5-2', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3', 'libldap-2.4-2:amd64', 'libldap-common', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto0:amd64', 'libmbedtls-dev:amd64', 'libmbedtls10:amd64', 'libmbedx509-0:amd64', 'libncbi-vdb2', 'libncbi-wvdb2', 'libncurses5:amd64', 'libnettle6:amd64', 'libnghttp2-14:amd64', 'libp11-kit0:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'libsz2:amd64', 'libtasn1-6:amd64', 'libunistring0:amd64', 'libxml2:amd64', 'mime-support', 'python', 'python-biopython', 'python-minimal', 'python-numpy', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2.7', 'python2.7-minimal', 'readline-common', 'samtools', 'sra-toolkit'] 0m24.4s DUMP: dpkg: warning: ignoring request to remove bwa which isn't installed dpkg: warning: ignoring request to remove libaec0 which isn't installed dpkg: warning: ignoring request to remove libblas-common which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libffi6 which isn't installed dpkg: warning: ignoring request to remove libfuse2 which isn't installed dpkg: warning: ignoring request to remove libgfortran3 which isn't installed dpkg: warning: ignoring request to remove libgmp10 which isn't installed dpkg: warning: ignoring request to remove libgnutls30 which isn't installed (Reading database ... 4426 files and directories currently installed.) Purging configuration files for libgssapi-krb5-2:amd64 (1.15-1+deb9u3) ... dpkg: warning: ignoring request to remove libhdf5-100 which isn't installed dpkg: warning: ignoring request to remove libhogweed4 which isn't installed dpkg: warning: ignoring request to remove libhts2 which isn't installed dpkg: warning: ignoring request to remove libicu57 which isn't installed dpkg: warning: ignoring request to remove libidn11 which isn't installed dpkg: warning: ignoring request to remove libidn2-0 which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkdf5-2 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 which isn't installed Purging configuration files for libldap-common (2.4.47+dfsg-3+deb10u2~bpo9+1) ... dpkg: warning: ignoring request to remove libmagic-mgc which isn't installed Purging configuration files for libmagic1:amd64 (1:5.30-1+deb9u3) ... dpkg: warning: ignoring request to remove libmbedcrypto0 which isn't installed dpkg: warning: ignoring request to remove libmbedtls-dev which isn't installed dpkg: warning: ignoring request to remove libmbedtls10 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-0 which isn't installed dpkg: warning: ignoring request to remove libncbi-vdb2 which isn't installed dpkg: warning: ignoring request to remove libncbi-wvdb2 which isn't installed dpkg: warning: ignoring request to remove libncurses5 which isn't installed dpkg: warning: ignoring request to remove libnettle6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libp11-kit0 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython-stdlib which isn't installed Purging configuration files for libpython2.7-minimal:amd64 (2.7.13-2+deb9u6) ... dpkg: warning: ignoring request to remove libpython2.7-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline7 which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed Purging configuration files for libssl1.1:amd64 (1.1.0l-1~deb9u6) ... dpkg: warning: ignoring request to remove libsz2 which isn't installed dpkg: warning: ignoring request to remove libtasn1-6 which isn't installed dpkg: warning: ignoring request to remove libunistring0 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed Purging configuration files for mime-support (3.60) ... Purging configuration files for python (2.7.13-2) ... dpkg: warning: ignoring request to remove python-biopython which isn't installed dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove python-numpy which isn't installed dpkg: warning: ignoring request to remove python-reportlab which isn't installed dpkg: warning: ignoring request to remove python-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove python2.7 which isn't installed Purging configuration files for python2.7-minimal (2.7.13-2+deb9u6) ... Purging configuration files for readline-common (7.0-3) ... dpkg: warning: ignoring request to remove samtools which isn't installed Purging configuration files for sra-toolkit (2.8.1-2+dfsg-2) ... 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg', '--purge', 'bwa', 'libaec0:amd64', 'libblas-common', 'libblas3', 'libcurl3-gnutls:amd64', 'libexpat1:amd64', 'libffi6:amd64', 'libfuse2:amd64', 'libgfortran3:amd64', 'libgmp10:amd64', 'libgnutls30:amd64', 'libgssapi-krb5-2:amd64', 'libhdf5-100:amd64', 'libhogweed4:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libidn11:amd64', 'libidn2-0:amd64', 'libk5crypto3:amd64', 'libkdf5-2', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3', 'libldap-2.4-2:amd64', 'libldap-common', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto0:amd64', 'libmbedtls-dev:amd64', 'libmbedtls10:amd64', 'libmbedx509-0:amd64', 'libncbi-vdb2', 'libncbi-wvdb2', 'libncurses5:amd64', 'libnettle6:amd64', 'libnghttp2-14:amd64', 'libp11-kit0:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'libsz2:amd64', 'libtasn1-6:amd64', 'libunistring0:amd64', 'libxml2:amd64', 'mime-support', 'python', 'python-biopython', 'python-minimal', 'python-numpy', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2.7', 'python2.7-minimal', 'readline-common', 'samtools', 'sra-toolkit'] 0m24.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg', '--purge', 'seqsero'] 0m24.4s DUMP: dpkg: warning: ignoring request to remove seqsero which isn't installed 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg', '--purge', 'seqsero'] 0m24.4s INFO: Running scripts post_purge 0m24.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_purge_exceptions'] 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_purge_exceptions'] 0m24.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg', '--purge', '--pending'] 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg', '--purge', '--pending'] 0m24.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg', '--remove', '--pending'] 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg', '--remove', '--pending'] 0m24.4s INFO: Running scripts post_test 0m24.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_test_exceptions'] 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'tmp/scripts/post_test_exceptions'] 0m24.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m24.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m24.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg-divert', '--list'] 0m24.7s 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 0m24.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'dpkg-divert', '--list'] 0m24.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', 'clean'] 0m24.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp373rd__w', 'apt-get', 'clean'] 0m24.7s DEBUG: Recording chroot state 0m25.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/shm'] 0m25.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/shm'] 0m25.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/console'] 0m25.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/console'] 0m25.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/ptmx'] 0m25.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/ptmx'] 0m25.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/pts'] 0m25.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/dev/pts'] 0m25.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/proc'] 0m25.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp373rd__w/proc'] 0m25.5s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m25.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp373rd__w'] 0m25.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp373rd__w 0m25.5s INFO: PASS: Upgrading between Debian distributions. 0m25.5s INFO: PASS: All tests. 0m25.5s INFO: piuparts run ends. ret=0 End: 2023-04-14 04:43:33 GMT