Start: 2020-06-14 06:18:11 GMT [testing] Package: tophat-recondition Version: 1.4-3 Installed-Size: 36 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any Suggests: tophat2 Description: post-processor for TopHat unmapped reads Homepage: https://github.com/cbrueffer/tophat-recondition Description-md5: b53fb81f926f4ff8c507481a84854191 Section: science Priority: optional Filename: pool/main/t/tophat-recondition/tophat-recondition_1.4-3_all.deb Size: 11112 MD5sum: b3dc549f0d957d3f728458d98a699aa0 SHA256: fb9068fc3583570e5b8e777c5734643676badb42c7ce70d7c224a8f8e487af08 [sid] Package: tophat-recondition Version: 1.4-3 Installed-Size: 36 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any Suggests: tophat2 Description: post-processor for TopHat unmapped reads Homepage: https://github.com/cbrueffer/tophat-recondition Description-md5: b53fb81f926f4ff8c507481a84854191 Section: science Priority: optional Filename: pool/main/t/tophat-recondition/tophat-recondition_1.4-3_all.deb Size: 11112 MD5sum: b3dc549f0d957d3f728458d98a699aa0 SHA256: fb9068fc3583570e5b8e777c5734643676badb42c7ce70d7c224a8f8e487af08 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt tophat-recondition=1.4-3 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 1.1.2~202004292056~1.1.1-20-gd7155993 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt tophat-recondition=1.4-3 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 4.19.0-9-amd64 #1 SMP Debian 4.19.118-2+deb10u1 (2020-06-07) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpbkiz7jeq 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpbkiz7jeq 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz'] 0m1.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye_amd64.tar.gz'] 0m1.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/proc'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/proc'] 0m1.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/pts'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/pts'] 0m1.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/ptmx'] 0m1.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/ptmx'] 0m1.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/console'] 0m1.6s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/console'] 0m1.6s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/shm'] 0m1.6s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/shm'] 0m1.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m1.6s DEBUG: Created policy-rc.d and chmodded it. 0m1.6s DEBUG: Created resolv.conf. 0m1.6s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpbkiz7jeq/tmp/scripts/ 0m1.6s INFO: Running scripts post_chroot_unpack 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', 'update'] 0m4.5s DUMP: Get:1 http://deb.debian.org/debian bullseye InRelease [116 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 Packages [7701 kB] Get:3 http://deb.debian.org/debian bullseye/main Translation-en [5891 kB] Fetched 13.7 MB in 2s (5836 kB/s) Reading package lists... 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', 'update'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-yf', 'dist-upgrade'] 0m5.6s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: libgnutls30 libgpg-error0 perl-base 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2902 kB of archives. After this operation, 20.5 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 perl-base amd64 5.30.3-4 [1576 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 libgnutls30 amd64 3.6.14-2 [1248 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 libgpg-error0 amd64 1.38-1 [77.5 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2902 kB in 0s (29.9 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 ... 6515 files and directories currently installed.) Preparing to unpack .../perl-base_5.30.3-4_amd64.deb ... Unpacking perl-base (5.30.3-4) over (5.30.2-1) ... Setting up perl-base (5.30.3-4) ... (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 ... 6515 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.6.14-2_amd64.deb ... Unpacking libgnutls30:amd64 (3.6.14-2) over (3.6.14-1) ... Setting up libgnutls30:amd64 (3.6.14-2) ... (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 ... 6515 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.38-1_amd64.deb ... Unpacking libgpg-error0:amd64 (1.38-1) over (1.37-1) ... Setting up libgpg-error0:amd64 (1.38-1) ... Processing triggers for libc-bin (2.30-8) ... 0m5.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-yf', 'dist-upgrade'] 0m5.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.9s DUMP: bcdee673e4824996788de74ea419d149 - 0m5.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.9s INFO: Running scripts post_setup 0m5.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_dummy_users'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_dummy_users'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_forbid_home'] 0m6.8s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_forbid_home'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.8s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_minimize'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_minimize'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_zz_backports'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_setup_zz_backports'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.8s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 2.1.6 install ok installed base-files base-files 11 install ok installed base-passwd base-passwd 3.5.47 install ok installed bash bash 5.0-6 install ok installed bsdutils bsdutils 1:2.35.2-2 install ok installed coreutils coreutils 8.30-3+b1 install ok installed dash dash 0.5.10.2-7 install ok installed debconf debconf 1.5.74 install ok installed debian-archive-keyring debian-archive-keyring 2019.1 install ok installed debianutils debianutils 4.9.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.7 install ok installed e2fsprogs e2fsprogs 1.45.6-1 install ok installed findutils findutils 4.7.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.1.0-3 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-13 install ok installed gpgv gpgv 2.2.20-1 install ok installed grep grep 3.4-1 install ok installed gzip gzip 1.10-2 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.57 install ok installed libacl1:amd64 libacl1 2.2.53-8 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.1.6 install ok installed libattr1:amd64 libattr1 1:2.4.48-5 install ok installed libaudit-common libaudit-common 1:2.8.5-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.5-3+b1 install ok installed libblkid1:amd64 libblkid1 2.35.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-3 install ok installed libc-bin libc-bin 2.30-8 install ok installed libc6:amd64 libc6 2.30-8 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2 install ok installed libcom-err2:amd64 libcom-err2 1.45.6-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.16-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.6 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.252 install ok installed libext2fs2:amd64 libext2fs2 1.45.6-1 install ok installed libffi7:amd64 libffi7 3.3-4 install ok installed libgcc-s1:amd64 libgcc-s1 10.1.0-3 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.5-5 install ok installed libgmp10:amd64 libgmp10 2:6.2.0+dfsg-4 install ok installed libgnutls30:amd64 libgnutls30 3.6.14-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-1 install ok installed libhogweed5:amd64 libhogweed5 3.5.1+really3.5.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.2-2 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+b1 install ok installed libmount1:amd64 libmount1 2.35.2-2 install ok installed libnettle7:amd64 libnettle7 3.5.1+really3.5.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.20-1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.34-7 install ok installed libpcre3:amd64 libpcre3 2:8.39-12+b1 install ok installed libseccomp2:amd64 libseccomp2 2.4.3-1+b1 install ok installed libselinux1:amd64 libselinux1 3.0-1+b3 install ok installed libsemanage-common libsemanage-common 3.0-1 install ok installed libsemanage1:amd64 libsemanage1 3.0-1+b3 install ok installed libsepol1:amd64 libsepol1 3.0-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.35.2-2 install ok installed libss2:amd64 libss2 1.45.6-1 install ok installed libstdc++6:amd64 libstdc++6 10.1.0-3 install ok installed libsystemd0:amd64 libsystemd0 245.6-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.2-1 install ok installed libudev1:amd64 libudev1 245.6-1 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.35.2-2 install ok installed libzstd1:amd64 libzstd1 1.4.5+dfsg-2 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.45.6-1 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.35.2-2 install ok installed ncurses-base ncurses-base 6.2-1 install ok installed ncurses-bin ncurses-bin 6.2-1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.30.3-4 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-3 install ok installed tar tar 1.30+dfsg-7 install ok installed tzdata tzdata 2020a-1 install ok installed util-linux util-linux 2.35.2-2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.8s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m6.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m7.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m7.0s INFO: Running scripts is_testable 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/is_testable_uninstallable'] 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/is_testable_uninstallable'] 0m7.0s INFO: Running scripts pre_test 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_test_exceptions'] 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_test_exceptions'] 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_test_root_password'] 0m7.0s DUMP: New password: Retype new password: passwd: password updated successfully 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_test_root_password'] 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'show', '--no-all-versions', 'tophat-recondition'] 0m7.2s DUMP: Package: tophat-recondition Version: 1.4-3 Installed-Size: 36 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any Suggests: tophat2 Description-en: post-processor for TopHat unmapped reads tophat-recondition is a post-processor for TopHat unmapped reads (contained in unmapped.bam), making them compatible with downstream tools (e.g., the Picard suite, samtools, GATK) (TopHat issue #17). It also works around bugs in TopHat: . * the "mate is unmapped" SAM flag is not set on any reads in the unmapped.bam file (TopHat issue #3) * the mapped mate of an unmapped read can be absent from accepted_hits.bam, creating a mismatch between the file and the unmapped read's flags (TopHat issue #16) Description-md5: b53fb81f926f4ff8c507481a84854191 Homepage: https://github.com/cbrueffer/tophat-recondition Section: science Priority: optional Filename: pool/main/t/tophat-recondition/tophat-recondition_1.4-3_all.deb Size: 11112 MD5sum: b3dc549f0d957d3f728458d98a699aa0 SHA256: fb9068fc3583570e5b8e777c5734643676badb42c7ce70d7c224a8f8e487af08 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'show', '--no-all-versions', 'tophat-recondition'] 0m7.2s INFO: apt-cache knows about the following packages: tophat-recondition 0m7.2s INFO: Running scripts pre_install 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_database-server'] 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_database-server'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_exceptions'] 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_exceptions'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_extras'] 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_extras'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy'] 0m7.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release o=Debian,a=testing,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy'] 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy', 'tophat-recondition'] 0m7.3s DUMP: tophat-recondition: Installed: (none) Candidate: 1.4-3 Version table: 1.4-3 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy', 'tophat-recondition'] 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-y', 'install', 'tophat-recondition'] 0m10.4s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libexpat1 libmpdec2 libncursesw6 libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libreadline8 libsqlite3-0 libssl1.1 mime-support python3 python3-minimal python3.8 python3.8-minimal readline-common Suggested packages: python3-doc python3-tk python3-venv python3.8-venv python3.8-doc binutils binfmt-support readline-doc tophat2 Recommended packages: libgpm2 bzip2 file xz-utils The following NEW packages will be installed: libexpat1 libmpdec2 libncursesw6 libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libreadline8 libsqlite3-0 libssl1.1 mime-support python3 python3-minimal python3.8 python3.8-minimal readline-common tophat-recondition 0 upgraded, 16 newly installed, 0 to remove and 0 not upgraded. Need to get 7706 kB of archives. After this operation, 26.7 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 libssl1.1 amd64 1.1.1g-1 [1543 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 libpython3.8-minimal amd64 3.8.3-1 [760 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.9-1 [94.3 kB] Get:4 http://deb.debian.org/debian bullseye/main amd64 python3.8-minimal amd64 3.8.3-1 [1943 kB] Get:5 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.8.2-3 [37.6 kB] Get:6 http://deb.debian.org/debian bullseye/main amd64 mime-support all 3.64 [37.8 kB] Get:7 http://deb.debian.org/debian bullseye/main amd64 libmpdec2 amd64 2.4.2-3 [84.1 kB] Get:8 http://deb.debian.org/debian bullseye/main amd64 libncursesw6 amd64 6.2-1 [133 kB] Get:9 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.0-4 [72.5 kB] Get:10 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.0-4 [160 kB] Get:11 http://deb.debian.org/debian bullseye/main amd64 libsqlite3-0 amd64 3.31.1-5 [661 kB] Get:12 http://deb.debian.org/debian bullseye/main amd64 libpython3.8-stdlib amd64 3.8.3-1 [1668 kB] Get:13 http://deb.debian.org/debian bullseye/main amd64 python3.8 amd64 3.8.3-1 [416 kB] Get:14 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.8.2-3 [20.8 kB] Get:15 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.8.2-3 [63.7 kB] Get:16 http://deb.debian.org/debian bullseye/main amd64 tophat-recondition all 1.4-3 [11.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7706 kB in 0s (55.5 MB/s) Selecting previously unselected package libssl1.1: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 ... 6517 files and directories currently installed.) Preparing to unpack .../libssl1.1_1.1.1g-1_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1g-1) ... Selecting previously unselected package libpython3.8-minimal:amd64. Preparing to unpack .../libpython3.8-minimal_3.8.3-1_amd64.deb ... Unpacking libpython3.8-minimal:amd64 (3.8.3-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.2.9-1_amd64.deb ... Unpacking libexpat1:amd64 (2.2.9-1) ... Selecting previously unselected package python3.8-minimal. Preparing to unpack .../python3.8-minimal_3.8.3-1_amd64.deb ... Unpacking python3.8-minimal (3.8.3-1) ... Setting up libssl1.1:amd64 (1.1.1g-1) ... Setting up libpython3.8-minimal:amd64 (3.8.3-1) ... Setting up libexpat1:amd64 (2.2.9-1) ... Setting up python3.8-minimal (3.8.3-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6820 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.8.2-3_amd64.deb ... Unpacking python3-minimal (3.8.2-3) ... Selecting previously unselected package mime-support. Preparing to unpack .../1-mime-support_3.64_all.deb ... Unpacking mime-support (3.64) ... Selecting previously unselected package libmpdec2:amd64. Preparing to unpack .../2-libmpdec2_2.4.2-3_amd64.deb ... Unpacking libmpdec2:amd64 (2.4.2-3) ... Selecting previously unselected package libncursesw6:amd64. Preparing to unpack .../3-libncursesw6_6.2-1_amd64.deb ... Unpacking libncursesw6:amd64 (6.2-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.0-4_all.deb ... Unpacking readline-common (8.0-4) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../5-libreadline8_8.0-4_amd64.deb ... Unpacking libreadline8:amd64 (8.0-4) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../6-libsqlite3-0_3.31.1-5_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.31.1-5) ... Selecting previously unselected package libpython3.8-stdlib:amd64. Preparing to unpack .../7-libpython3.8-stdlib_3.8.3-1_amd64.deb ... Unpacking libpython3.8-stdlib:amd64 (3.8.3-1) ... Selecting previously unselected package python3.8. Preparing to unpack .../8-python3.8_3.8.3-1_amd64.deb ... Unpacking python3.8 (3.8.3-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../9-libpython3-stdlib_3.8.2-3_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.8.2-3) ... Setting up python3-minimal (3.8.2-3) ... Selecting previously unselected package python3. (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 ... 7263 files and directories currently installed.) Preparing to unpack .../python3_3.8.2-3_amd64.deb ... Unpacking python3 (3.8.2-3) ... Selecting previously unselected package tophat-recondition. Preparing to unpack .../tophat-recondition_1.4-3_all.deb ... Unpacking tophat-recondition (1.4-3) ... Setting up mime-support (3.64) ... Setting up libsqlite3-0:amd64 (3.31.1-5) ... Setting up libncursesw6:amd64 (6.2-1) ... Setting up libmpdec2:amd64 (2.4.2-3) ... Setting up readline-common (8.0-4) ... Setting up libreadline8:amd64 (8.0-4) ... Setting up libpython3.8-stdlib:amd64 (3.8.3-1) ... Setting up python3.8 (3.8.3-1) ... Setting up libpython3-stdlib:amd64 (3.8.2-3) ... Setting up python3 (3.8.2-3) ... Setting up tophat-recondition (1.4-3) ... Processing triggers for libc-bin (2.30-8) ... 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-y', 'install', 'tophat-recondition'] 0m10.4s INFO: Running scripts post_install 0m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_install_exceptions'] 0m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_install_exceptions'] 0m10.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m10.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m10.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpbkiz7jeq to sid 0m10.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m10.6s INFO: Running scripts pre_distupgrade 0m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_exceptions'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_exceptions'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m10.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m10.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', 'update'] 0m13.7s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [146 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [8239 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [6197 kB] Fetched 14.6 MB in 2s (6103 kB/s) Reading package lists... 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', 'update'] 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-yf', 'dist-upgrade'] 0m14.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: debianutils libgmp10 libsqlite3-0 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 1106 kB of archives. After this operation, 92.2 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 debianutils amd64 4.11 [101 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libgmp10 amd64 2:6.2.0+dfsg-5 [253 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.32.2-2 [752 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 1106 kB in 0s (13.0 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 ... 7305 files and directories currently installed.) Preparing to unpack .../debianutils_4.11_amd64.deb ... Unpacking debianutils (4.11) over (4.9.1) ... Setting up debianutils (4.11) ... (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 ... 7305 files and directories currently installed.) Preparing to unpack .../libgmp10_2%3a6.2.0+dfsg-5_amd64.deb ... Unpacking libgmp10:amd64 (2:6.2.0+dfsg-5) over (2:6.2.0+dfsg-4) ... Setting up libgmp10:amd64 (2:6.2.0+dfsg-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 ... 7305 files and directories currently installed.) Preparing to unpack .../libsqlite3-0_3.32.2-2_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.32.2-2) over (3.31.1-5) ... Setting up libsqlite3-0:amd64 (3.32.2-2) ... Processing triggers for libc-bin (2.30-8) ... 0m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-yf', 'dist-upgrade'] 0m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m15.0s DUMP: 7095701f5e36b5a4f4df2951f7c9c153 - 0m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'show', '--no-all-versions', 'tophat-recondition'] 0m15.2s DUMP: Package: tophat-recondition Version: 1.4-3 Installed-Size: 36 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3:any Suggests: tophat2 Description-en: post-processor for TopHat unmapped reads tophat-recondition is a post-processor for TopHat unmapped reads (contained in unmapped.bam), making them compatible with downstream tools (e.g., the Picard suite, samtools, GATK) (TopHat issue #17). It also works around bugs in TopHat: . * the "mate is unmapped" SAM flag is not set on any reads in the unmapped.bam file (TopHat issue #3) * the mapped mate of an unmapped read can be absent from accepted_hits.bam, creating a mismatch between the file and the unmapped read's flags (TopHat issue #16) Description-md5: b53fb81f926f4ff8c507481a84854191 Homepage: https://github.com/cbrueffer/tophat-recondition Section: science Priority: optional Filename: pool/main/t/tophat-recondition/tophat-recondition_1.4-3_all.deb Size: 11112 MD5sum: b3dc549f0d957d3f728458d98a699aa0 SHA256: fb9068fc3583570e5b8e777c5734643676badb42c7ce70d7c224a8f8e487af08 0m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'show', '--no-all-versions', 'tophat-recondition'] 0m15.2s INFO: apt-cache knows about the following packages: tophat-recondition 0m15.2s INFO: Running scripts pre_install 0m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_database-server'] 0m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_database-server'] 0m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_exceptions'] 0m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_exceptions'] 0m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_extras'] 0m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_extras'] 0m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture'] 0m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture'] 0m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy'] 0m15.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy'] 0m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy', 'tophat-recondition'] 0m15.3s DUMP: tophat-recondition: Installed: 1.4-3 Candidate: 1.4-3 Version table: *** 1.4-3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy', 'tophat-recondition'] 0m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-y', 'install', 'tophat-recondition'] 0m15.6s DUMP: Reading package lists... Building dependency tree... Reading state information... tophat-recondition is already the newest version (1.4-3). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-y', 'install', 'tophat-recondition'] 0m15.6s INFO: Running scripts post_install 0m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_install_exceptions'] 0m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_install_exceptions'] 0m15.6s INFO: Running scripts post_distupgrade 0m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_exceptions'] 0m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_exceptions'] 0m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m15.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m15.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_zz_backports'] 0m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_distupgrade_zz_backports'] 0m15.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m15.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m15.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m16.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m16.2s INFO: Running scripts pre_install 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_database-server'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_database-server'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_exceptions'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_exceptions'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_extras'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_extras'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m16.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m16.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy'] 0m16.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m16.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy'] 0m16.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy', 'tophat-recondition'] 0m16.3s DUMP: tophat-recondition: Installed: 1.4-3 Candidate: 1.4-3 Version table: *** 1.4-3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m16.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-cache', 'policy', 'tophat-recondition'] 0m16.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-y', 'install', 'tophat-recondition=1.4-3'] 0m16.6s DUMP: Reading package lists... Building dependency tree... Reading state information... tophat-recondition is already the newest version (1.4-3). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m16.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', '-y', 'install', 'tophat-recondition=1.4-3'] 0m16.6s INFO: Running scripts post_install 0m16.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_install_exceptions'] 0m16.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_install_exceptions'] 0m16.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m16.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m17.3s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', '-ac', '--ignore-obsolete'] 0m17.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', '-ac', '--ignore-obsolete'] 0m17.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m17.9s DUMP: 0.15.2 0m17.9s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m17.9s INFO: Running adequate version 0.15.2 now. 0m17.9s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tophat-recondition'] 0m18.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tophat-recondition'] 0m18.0s INFO: Running scripts pre_remove 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m18.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m18.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m18.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m18.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m18.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m18.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_exceptions'] 0m18.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/pre_remove_exceptions'] 0m18.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m18.7s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 2.1.6 install ok installed base-files base-files 11 install ok installed base-passwd base-passwd 3.5.47 install ok installed bash bash 5.0-6 install ok installed bsdutils bsdutils 1:2.35.2-2 install ok installed coreutils coreutils 8.30-3+b1 install ok installed dash dash 0.5.10.2-7 install ok installed debconf debconf 1.5.74 install ok installed debian-archive-keyring debian-archive-keyring 2019.1 install ok installed debianutils debianutils 4.11 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.7 install ok installed e2fsprogs e2fsprogs 1.45.6-1 install ok installed findutils findutils 4.7.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.1.0-3 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-13 install ok installed gpgv gpgv 2.2.20-1 install ok installed grep grep 3.4-1 install ok installed gzip gzip 1.10-2 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.57 install ok installed libacl1:amd64 libacl1 2.2.53-8 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.1.6 install ok installed libattr1:amd64 libattr1 1:2.4.48-5 install ok installed libaudit-common libaudit-common 1:2.8.5-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.5-3+b1 install ok installed libblkid1:amd64 libblkid1 2.35.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-3 install ok installed libc-bin libc-bin 2.30-8 install ok installed libc6:amd64 libc6 2.30-8 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2 install ok installed libcom-err2:amd64 libcom-err2 1.45.6-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.16-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.6 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.252 install ok installed libexpat1:amd64 libexpat1 2.2.9-1 install ok installed libext2fs2:amd64 libext2fs2 1.45.6-1 install ok installed libffi7:amd64 libffi7 3.3-4 install ok installed libgcc-s1:amd64 libgcc-s1 10.1.0-3 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.5-5 install ok installed libgmp10:amd64 libgmp10 2:6.2.0+dfsg-5 install ok installed libgnutls30:amd64 libgnutls30 3.6.14-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-1 install ok installed libhogweed5:amd64 libhogweed5 3.5.1+really3.5.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.2-2 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+b1 install ok installed libmount1:amd64 libmount1 2.35.2-2 install ok installed libmpdec2:amd64 libmpdec2 2.4.2-3 install ok installed libncursesw6:amd64 libncursesw6 6.2-1 install ok installed libnettle7:amd64 libnettle7 3.5.1+really3.5.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.20-1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.34-7 install ok installed libpcre3:amd64 libpcre3 2:8.39-12+b1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.8.2-3 install ok installed libpython3.8-minimal:amd64 libpython3.8-minimal 3.8.3-1 install ok installed libpython3.8-stdlib:amd64 libpython3.8-stdlib 3.8.3-1 install ok installed libreadline8:amd64 libreadline8 8.0-4 install ok installed libseccomp2:amd64 libseccomp2 2.4.3-1+b1 install ok installed libselinux1:amd64 libselinux1 3.0-1+b3 install ok installed libsemanage-common libsemanage-common 3.0-1 install ok installed libsemanage1:amd64 libsemanage1 3.0-1+b3 install ok installed libsepol1:amd64 libsepol1 3.0-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.35.2-2 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.32.2-2 install ok installed libss2:amd64 libss2 1.45.6-1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1g-1 install ok installed libstdc++6:amd64 libstdc++6 10.1.0-3 install ok installed libsystemd0:amd64 libsystemd0 245.6-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.2-1 install ok installed libudev1:amd64 libudev1 245.6-1 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.35.2-2 install ok installed libzstd1:amd64 libzstd1 1.4.5+dfsg-2 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.45.6-1 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mime-support mime-support 3.64 install ok installed mount mount 2.35.2-2 install ok installed ncurses-base ncurses-base 6.2-1 install ok installed ncurses-bin ncurses-bin 6.2-1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.30.3-4 install ok installed python3 python3 3.8.2-3 install ok installed python3-minimal python3-minimal 3.8.2-3 install ok installed python3.8 python3.8 3.8.3-1 install ok installed python3.8-minimal python3.8-minimal 3.8.3-1 install ok installed readline-common readline-common 8.0-4 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-3 install ok installed tar tar 1.30+dfsg-7 install ok installed tophat-recondition tophat-recondition 1.4-3 install ok installed tzdata tzdata 2020a-1 install ok installed util-linux util-linux 2.35.2-2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2 0m18.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m18.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', 'remove', 'libexpat1:amd64', 'libmpdec2:amd64', 'libncursesw6:amd64', 'libpython3-stdlib:amd64', 'libpython3.8-minimal:amd64', 'libpython3.8-stdlib:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libssl1.1:amd64', 'mime-support', 'python3', 'python3-minimal', 'python3.8', 'python3.8-minimal', 'readline-common', 'tophat-recondition'] 0m19.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: libexpat1 libmpdec2 libncursesw6 libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libreadline8 libsqlite3-0 libssl1.1 mime-support python3 python3-minimal python3.8 python3.8-minimal readline-common tophat-recondition 0 upgraded, 0 newly installed, 16 to remove and 0 not upgraded. After this operation, 26.8 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 ... 7305 files and directories currently installed.) Removing tophat-recondition (1.4-3) ... Removing python3 (3.8.2-3) ... Removing python3-minimal (3.8.2-3) ... Removing python3.8 (3.8.3-1) ... Removing python3.8-minimal (3.8.3-1) ... Removing libexpat1:amd64 (2.2.9-1) ... Removing libpython3-stdlib:amd64 (3.8.2-3) ... Removing libpython3.8-stdlib:amd64 (3.8.3-1) ... find: '/usr/lib/python3': No such file or directory Removing libmpdec2:amd64 (2.4.2-3) ... Removing libncursesw6:amd64 (6.2-1) ... Removing libpython3.8-minimal:amd64 (3.8.3-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.0-4) ... Removing libsqlite3-0:amd64 (3.32.2-2) ... Removing libssl1.1:amd64 (1.1.1g-1) ... Removing mime-support (3.64) ... Removing readline-common (8.0-4) ... Processing triggers for libc-bin (2.30-8) ... 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', 'remove', 'libexpat1:amd64', 'libmpdec2:amd64', 'libncursesw6:amd64', 'libpython3-stdlib:amd64', 'libpython3.8-minimal:amd64', 'libpython3.8-stdlib:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libssl1.1:amd64', 'mime-support', 'python3', 'python3-minimal', 'python3.8', 'python3.8-minimal', 'readline-common', 'tophat-recondition'] 0m19.5s INFO: Running scripts post_remove 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_remove_exceptions'] 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_remove_exceptions'] 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg', '--purge', 'libexpat1:amd64', 'libmpdec2:amd64', 'libncursesw6:amd64', 'libpython3-stdlib:amd64', 'libpython3.8-minimal:amd64', 'libpython3.8-stdlib:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libssl1.1:amd64', 'mime-support', 'python3', 'python3-minimal', 'python3.8', 'python3.8-minimal', 'readline-common'] 0m19.6s DUMP: dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libmpdec2 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed (Reading database ... 6521 files and directories currently installed.) Purging configuration files for libpython3.8-minimal:amd64 (3.8.3-1) ... dpkg: warning: ignoring request to remove libpython3.8-stdlib which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed Purging configuration files for libssl1.1:amd64 (1.1.1g-1) ... Purging configuration files for mime-support (3.64) ... Purging configuration files for python3 (3.8.2-3) ... dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3.8 which isn't installed Purging configuration files for python3.8-minimal (3.8.3-1) ... Purging configuration files for readline-common (8.0-4) ... 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg', '--purge', 'libexpat1:amd64', 'libmpdec2:amd64', 'libncursesw6:amd64', 'libpython3-stdlib:amd64', 'libpython3.8-minimal:amd64', 'libpython3.8-stdlib:amd64', 'libreadline8:amd64', 'libsqlite3-0:amd64', 'libssl1.1:amd64', 'mime-support', 'python3', 'python3-minimal', 'python3.8', 'python3.8-minimal', 'readline-common'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg', '--purge', 'tophat-recondition'] 0m19.6s DUMP: dpkg: warning: ignoring request to remove tophat-recondition which isn't installed 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg', '--purge', 'tophat-recondition'] 0m19.6s INFO: Running scripts post_purge 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_purge_exceptions'] 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_purge_exceptions'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg', '--purge', '--pending'] 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg', '--purge', '--pending'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg', '--remove', '--pending'] 0m19.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg', '--remove', '--pending'] 0m19.7s INFO: Running scripts post_test 0m19.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_test_exceptions'] 0m19.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'tmp/scripts/post_test_exceptions'] 0m19.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m19.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m19.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg-divert', '--list'] 0m19.9s 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 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'dpkg-divert', '--list'] 0m19.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', 'clean'] 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq', 'apt-get', 'clean'] 0m19.9s DEBUG: Recording chroot state 0m20.4s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/shm'] 0m20.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/shm'] 0m20.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/console'] 0m20.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/console'] 0m20.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/ptmx'] 0m20.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/ptmx'] 0m20.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/pts'] 0m20.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/dev/pts'] 0m20.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/proc'] 0m20.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq/proc'] 0m20.5s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m20.6s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpbkiz7jeq'] 0m20.6s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpbkiz7jeq 0m20.6s INFO: PASS: Upgrading between Debian distributions. 0m20.6s INFO: PASS: All tests. 0m20.6s INFO: piuparts run ends. ret=0 End: 2020-06-14 06:18:32 GMT