Start: 2023-01-03 17:58:29 GMT [testing] Package: sim4db Source: kmer (0~20150903+r2013-8) Version: 0~20150903+r2013-8+b2 Installed-Size: 3325 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.33), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2) Recommends: leaff, kmer-examples Description: batch spliced alignment of cDNA sequences to a target genome Homepage: http://kmer.sourceforge.net Description-md5: 85f8fe3bbe88f71c2e69cb9b24788d42 Section: science Priority: optional Filename: pool/main/k/kmer/sim4db_0~20150903+r2013-8+b2_amd64.deb Size: 437704 MD5sum: 04bdeed792abf9956202f22dc9c51314 SHA256: c2c482ea524318ae63729e861867b50a2def8f63dc0fe951ddc2151033b24c82 [sid] Package: sim4db Source: kmer (0~20150903+r2013-8) Version: 0~20150903+r2013-8+b3 Installed-Size: 3308 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2) Recommends: leaff, kmer-examples Description: batch spliced alignment of cDNA sequences to a target genome Homepage: http://kmer.sourceforge.net Description-md5: 85f8fe3bbe88f71c2e69cb9b24788d42 Section: science Priority: optional Filename: pool/main/k/kmer/sim4db_0~20150903+r2013-8+b3_amd64.deb Size: 441288 MD5sum: 2df098b2fd77a5d1ebf0f4cb57447a4e SHA256: 8c9bcac106ad80e82793a0f76db821afcfb33841fb397f5a6e6b38ce9b98be5e 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/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt 'sim4db=0~20150903+r2013-8+b3' 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt 'sim4db=0~20150903+r2013-8+b3' 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-20-amd64 #1 SMP Debian 5.10.158-2 (2022-12-13) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp7cggjl9o 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp7cggjl9o 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/proc'] 0m2.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/proc'] 0m2.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/pts'] 0m2.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/pts'] 0m2.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/ptmx'] 0m2.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/ptmx'] 0m2.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/console'] 0m2.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/console'] 0m2.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/shm'] 0m2.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/shm'] 0m2.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m2.4s DEBUG: Created policy-rc.d and chmodded it. 0m2.4s DEBUG: Created resolv.conf. 0m2.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp7cggjl9o/tmp/scripts/ 0m2.4s INFO: Running scripts post_chroot_unpack 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', 'update'] 0m5.8s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [164 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8848 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [5974 kB] Fetched 15.0 MB in 3s (5930 kB/s) Reading package lists... 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', 'update'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-yf', 'dist-upgrade'] 0m6.2s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-yf', 'dist-upgrade'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.5s DUMP: 1b6860cead41ec713cc12333b68b3ebb - 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m6.5s INFO: Running scripts post_setup 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_dummy_users'] 0m7.6s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_dummy_users'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_forbid_home'] 0m7.6s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_forbid_home'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_force-unsafe-io'] 0m7.6s 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' 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_force-unsafe-io'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_minimize'] 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_minimize'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_squeeze-backports'] 0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_squeeze-backports'] 0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_zz_backports'] 0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_setup_zz_backports'] 0m7.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m7.7s DUMP: install ok installed apt apt 2.5.4 install ok installed base-files base-files 12.3 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2-2+b2 install ok installed bsdutils bsdutils 1:2.38.1-4 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-9 install ok installed debconf debconf 1.5.80 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.4 install ok installed diffutils diffutils 1:3.8-3 install ok installed dpkg dpkg 1.21.13 install ok installed e2fsprogs e2fsprogs 1.46.6~rc1-1+b1 install ok installed findutils findutils 4.9.0-3 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-11 install ok installed gpgv gpgv 2.2.40-1 install ok installed grep grep 3.8-3 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-2 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.4 install ok installed libattr1:amd64 libattr1 1:2.5.1-3 install ok installed libaudit-common libaudit-common 1:3.0.7-1.1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1.1+b2 install ok installed libblkid1:amd64 libblkid1 2.38.1-4 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-7 install ok installed libc6:amd64 libc6 2.36-7 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b2 install ok installed libcap2:amd64 libcap2 1:2.66-3 install ok installed libcom-err2:amd64 libcom-err2 1.46.6~rc1-1+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.10 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.265 install ok installed libext2fs2:amd64 libext2fs2 1.46.6~rc1-1+b1 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libfile-find-rule-perl libfile-find-rule-perl 0.34-3 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-11 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.8-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.0-0.1 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-4 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnumber-compare-perl libnumber-compare-perl 0.03-3 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-5 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-5 install ok installed libpam-runtime libpam-runtime 1.5.2-5 install ok installed libpam0g:amd64 libpam0g 1.5.2-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.40-3 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-6 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b2 install ok installed libselinux1:amd64 libselinux1 3.4-1+b4 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b4 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-4 install ok installed libss2:amd64 libss2 1.46.6~rc1-1+b1 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-11 install ok installed libsystemd0:amd64 libsystemd0 252.4-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtext-glob-perl libtext-glob-perl 0.11-3 install ok installed libtinfo6:amd64 libtinfo6 6.3+20221224-2 install ok installed libudev1:amd64 libudev1 252.4-1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-4 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg2-3 install ok installed login login 1:4.13+dfsg1-1 install ok installed logsave logsave 1.46.6~rc1-1+b1 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-4 install ok installed ncurses-base ncurses-base 6.3+20221224-2 install ok installed ncurses-bin ncurses-bin 6.3+20221224-2 install ok installed passwd passwd 1:4.13+dfsg1-1 install ok installed perl perl 5.36.0-6 install ok installed perl-base perl-base 5.36.0-6 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-6 install ok installed sed sed 4.8-1 install ok installed sysvinit-utils sysvinit-utils 3.06-2 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2022f-1 install ok installed usr-is-merged usr-is-merged 35 install ok installed usrmerge usrmerge 35 install ok installed util-linux util-linux 2.38.1-4 install ok installed util-linux-extra util-linux-extra 2.38.1-4 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m7.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m7.7s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m7.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m8.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m8.0s INFO: Running scripts is_testable 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/is_testable_uninstallable'] 0m8.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/is_testable_uninstallable'] 0m8.0s INFO: Running scripts pre_test 0m8.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_test_exceptions'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_test_exceptions'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_test_root_password'] 0m8.1s DUMP: New password: Retype new password: passwd: password updated successfully 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_test_root_password'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'show', '--no-all-versions', 'sim4db'] 0m8.3s DUMP: Package: sim4db Source: kmer (0~20150903+r2013-8) Version: 0~20150903+r2013-8+b2 Installed-Size: 3325 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.33), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2) Recommends: leaff, kmer-examples Description-en: batch spliced alignment of cDNA sequences to a target genome Sim4db performs fast batch alignment of large cDNA (EST, mRNA) sequence sets to a set of eukaryotic genomic regions. It uses the sim4 and sim4cc algorithms to determine the alignments, but incorporates a fast sequence indexing and retrieval mechanism, implemented in the sister package 'leaff', to speedily process large volumes of sequences. . While sim4db produces alignments in the same way as sim4 or sim4cc, it has additional features to make it more amenable for use with whole-genome annotation pipelines. A script file can be used to group pairings between cDNAs and their corresponding genomic regions, to be aligned as one run and using the same set of parameters. Sim4db also optionally reports more than one alignment for the same cDNA within a genomic region, as long as they meet user-defined criteria such as minimum length, percentage sequence identity or coverage. This feature is instrumental in finding all alignments of a gene family at one locus. Lastly, the output is presented either as custom sim4db alignments or as GFF3 gene features. . This package is part of the Kmer suite. Description-md5: 85f8fe3bbe88f71c2e69cb9b24788d42 Homepage: http://kmer.sourceforge.net Section: science Priority: optional Filename: pool/main/k/kmer/sim4db_0~20150903+r2013-8+b2_amd64.deb Size: 437704 MD5sum: 04bdeed792abf9956202f22dc9c51314 SHA256: c2c482ea524318ae63729e861867b50a2def8f63dc0fe951ddc2151033b24c82 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'show', '--no-all-versions', 'sim4db'] 0m8.3s INFO: apt-cache knows about the following packages: sim4db 0m8.3s INFO: Running scripts pre_install 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_database-server'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_database-server'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_exceptions'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_exceptions'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_extras'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_extras'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy'] 0m8.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release o=Debian,a=testing,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy', 'sim4db'] 0m8.4s DUMP: sim4db: Installed: (none) Candidate: 0~20150903+r2013-8+b2 Version table: 0~20150903+r2013-8+b2 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy', 'sim4db'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-y', 'install', 'sim4db'] 0m9.5s DUMP: Reading package lists... Building dependency tree... Recommended packages: leaff kmer-examples The following NEW packages will be installed: sim4db 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 438 kB of archives. After this operation, 3405 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 sim4db amd64 0~20150903+r2013-8+b2 [438 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 438 kB in 0s (3887 kB/s) Selecting previously unselected package sim4db. (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 ... 8605 files and directories currently installed.) Preparing to unpack .../sim4db_0~20150903+r2013-8+b2_amd64.deb ... Unpacking sim4db (0~20150903+r2013-8+b2) ... Setting up sim4db (0~20150903+r2013-8+b2) ... 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-y', 'install', 'sim4db'] 0m9.5s INFO: Running scripts post_install 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_install_exceptions'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_install_exceptions'] 0m9.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m9.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m9.9s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp7cggjl9o to sid 0m9.9s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m9.9s INFO: Running scripts pre_distupgrade 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_exceptions'] 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_exceptions'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', 'update'] 0m13.7s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [161 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9381 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [6945 kB] Fetched 16.5 MB in 3s (5583 kB/s) Reading package lists... 0m13.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', 'update'] 0m13.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-yf', 'dist-upgrade'] 0m26.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: bash debconf dpkg gcc-12-base hostname libdebconfclient0 libgcc-s1 libpcre2-8-0 libstdc++6 libtinfo6 ncurses-base ncurses-bin sed sim4db tar tzdata 16 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 7887 kB of archives. After this operation, 848 kB disk space will be freed. Get:1 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.15-2 [1490 kB] Get:2 http://deb.debian.org/debian sid/main amd64 tar amd64 1.34+dfsg-1.1 [836 kB] Get:3 http://deb.debian.org/debian sid/main amd64 dpkg amd64 1.21.15 [2416 kB] Get:4 http://deb.debian.org/debian sid/main amd64 hostname amd64 3.23+nmu1 [10.5 kB] Get:5 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.4-1 [421 kB] Get:6 http://deb.debian.org/debian sid/main amd64 sed amd64 4.8-1.1 [313 kB] Get:7 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.4-1 [261 kB] Get:8 http://deb.debian.org/debian sid/main amd64 debconf all 1.5.81 [121 kB] Get:9 http://deb.debian.org/debian sid/main amd64 gcc-12-base amd64 12.2.0-13 [37.4 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 12.2.0-13 [613 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 12.2.0-13 [49.9 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.266 [8984 B] Get:13 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.42-1 [261 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.4-1 [331 kB] Get:15 http://deb.debian.org/debian sid/main amd64 tzdata all 2022g-1 [277 kB] Get:16 http://deb.debian.org/debian sid/main amd64 sim4db amd64 0~20150903+r2013-8+b3 [441 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7887 kB in 0s (28.2 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 ... 8661 files and directories currently installed.) Preparing to unpack .../bash_5.2.15-2_amd64.deb ... Unpacking bash (5.2.15-2) over (5.2-2+b2) ... Setting up bash (5.2.15-2) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (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 ... 8660 files and directories currently installed.) Preparing to unpack .../tar_1.34+dfsg-1.1_amd64.deb ... Unpacking tar (1.34+dfsg-1.1) over (1.34+dfsg-1) ... Setting up tar (1.34+dfsg-1.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8660 files and directories currently installed.) Preparing to unpack .../dpkg_1.21.15_amd64.deb ... Unpacking dpkg (1.21.15) over (1.21.13) ... Setting up dpkg (1.21.15) ... (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 ... 8659 files and directories currently installed.) Preparing to unpack .../hostname_3.23+nmu1_amd64.deb ... Unpacking hostname (3.23+nmu1) over (3.23) ... Setting up hostname (3.23+nmu1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8659 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.4-1_amd64.deb ... Unpacking ncurses-bin (6.4-1) over (6.3+20221224-2) ... Setting up ncurses-bin (6.4-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8659 files and directories currently installed.) Preparing to unpack .../archives/sed_4.8-1.1_amd64.deb ... Unpacking sed (4.8-1.1) over (4.8-1) ... Setting up sed (4.8-1.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8659 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.4-1_all.deb ... Unpacking ncurses-base (6.4-1) over (6.3+20221224-2) ... Setting up ncurses-base (6.4-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8659 files and directories currently installed.) Preparing to unpack .../debconf_1.5.81_all.deb ... Unpacking debconf (1.5.81) over (1.5.80) ... Setting up debconf (1.5.81) ... (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 ... 8659 files and directories currently installed.) Preparing to unpack .../gcc-12-base_12.2.0-13_amd64.deb ... Unpacking gcc-12-base:amd64 (12.2.0-13) over (12.2.0-11) ... Setting up gcc-12-base:amd64 (12.2.0-13) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8659 files and directories currently installed.) Preparing to unpack .../libstdc++6_12.2.0-13_amd64.deb ... Unpacking libstdc++6:amd64 (12.2.0-13) over (12.2.0-11) ... Setting up libstdc++6:amd64 (12.2.0-13) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8659 files and directories currently installed.) Preparing to unpack .../libgcc-s1_12.2.0-13_amd64.deb ... Unpacking libgcc-s1:amd64 (12.2.0-13) over (12.2.0-11) ... Setting up libgcc-s1:amd64 (12.2.0-13) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8659 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.266_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.266) over (0.265) ... Setting up libdebconfclient0:amd64 (0.266) ... (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 ... 8659 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.42-1_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.42-1) over (10.40-3) ... Setting up libpcre2-8-0:amd64 (10.42-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8659 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.4-1_amd64.deb ... Unpacking libtinfo6:amd64 (6.4-1) over (6.3+20221224-2) ... Setting up libtinfo6:amd64 (6.4-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8659 files and directories currently installed.) Preparing to unpack .../tzdata_2022g-1_all.deb ... Unpacking tzdata (2022g-1) over (2022f-1) ... Preparing to unpack .../sim4db_0~20150903+r2013-8+b3_amd64.deb ... Unpacking sim4db (0~20150903+r2013-8+b3) over (0~20150903+r2013-8+b2) ... Setting up sim4db (0~20150903+r2013-8+b3) ... Setting up tzdata (2022g-1) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Jan 3 17:58:56 UTC 2023. Universal Time is now: Tue Jan 3 17:58:56 UTC 2023. Run 'dpkg-reconfigure tzdata' if you wish to change it. Processing triggers for libc-bin (2.36-7) ... Processing triggers for debianutils (5.7-0.4) ... 0m26.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-yf', 'dist-upgrade'] 0m26.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m27.3s DUMP: 2a63a7a2d40946f66f50bc7c8122eff6 - 0m27.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'show', '--no-all-versions', 'sim4db'] 0m27.5s DUMP: Package: sim4db Source: kmer (0~20150903+r2013-8) Version: 0~20150903+r2013-8+b3 Installed-Size: 3308 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2) Recommends: leaff, kmer-examples Description-en: batch spliced alignment of cDNA sequences to a target genome Sim4db performs fast batch alignment of large cDNA (EST, mRNA) sequence sets to a set of eukaryotic genomic regions. It uses the sim4 and sim4cc algorithms to determine the alignments, but incorporates a fast sequence indexing and retrieval mechanism, implemented in the sister package 'leaff', to speedily process large volumes of sequences. . While sim4db produces alignments in the same way as sim4 or sim4cc, it has additional features to make it more amenable for use with whole-genome annotation pipelines. A script file can be used to group pairings between cDNAs and their corresponding genomic regions, to be aligned as one run and using the same set of parameters. Sim4db also optionally reports more than one alignment for the same cDNA within a genomic region, as long as they meet user-defined criteria such as minimum length, percentage sequence identity or coverage. This feature is instrumental in finding all alignments of a gene family at one locus. Lastly, the output is presented either as custom sim4db alignments or as GFF3 gene features. . This package is part of the Kmer suite. Description-md5: 85f8fe3bbe88f71c2e69cb9b24788d42 Homepage: http://kmer.sourceforge.net Section: science Priority: optional Filename: pool/main/k/kmer/sim4db_0~20150903+r2013-8+b3_amd64.deb Size: 441288 MD5sum: 2df098b2fd77a5d1ebf0f4cb57447a4e SHA256: 8c9bcac106ad80e82793a0f76db821afcfb33841fb397f5a6e6b38ce9b98be5e 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'show', '--no-all-versions', 'sim4db'] 0m27.5s INFO: apt-cache knows about the following packages: sim4db 0m27.5s INFO: Running scripts pre_install 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_database-server'] 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_database-server'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_exceptions'] 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_exceptions'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_extras'] 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_extras'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture'] 0m27.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture'] 0m27.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m27.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m27.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy'] 0m27.6s 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: 0m27.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy'] 0m27.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy', 'sim4db'] 0m27.7s DUMP: sim4db: Installed: 0~20150903+r2013-8+b3 Candidate: 0~20150903+r2013-8+b3 Version table: *** 0~20150903+r2013-8+b3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m27.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy', 'sim4db'] 0m27.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-y', 'install', 'sim4db'] 0m28.2s DUMP: Reading package lists... Building dependency tree... Reading state information... sim4db is already the newest version (0~20150903+r2013-8+b3). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-y', 'install', 'sim4db'] 0m28.2s INFO: Running scripts post_install 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_install_exceptions'] 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_install_exceptions'] 0m28.2s INFO: Running scripts post_distupgrade 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_exceptions'] 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_exceptions'] 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m28.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m28.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_zz_backports'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_distupgrade_zz_backports'] 0m28.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m28.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m28.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m29.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m29.1s INFO: Running scripts pre_install 0m29.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_database-server'] 0m29.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_database-server'] 0m29.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_exceptions'] 0m29.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_exceptions'] 0m29.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_extras'] 0m29.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_extras'] 0m29.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture'] 0m29.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture'] 0m29.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m29.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m29.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy'] 0m29.2s 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: 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy'] 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy', 'sim4db'] 0m29.2s DUMP: sim4db: Installed: 0~20150903+r2013-8+b3 Candidate: 0~20150903+r2013-8+b3 Version table: *** 0~20150903+r2013-8+b3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-cache', 'policy', 'sim4db'] 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-y', 'install', 'sim4db=0~20150903+r2013-8+b3'] 0m29.7s DUMP: Reading package lists... Building dependency tree... Reading state information... sim4db is already the newest version (0~20150903+r2013-8+b3). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m29.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', '-y', 'install', 'sim4db=0~20150903+r2013-8+b3'] 0m29.7s INFO: Running scripts post_install 0m29.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_install_exceptions'] 0m29.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_install_exceptions'] 0m29.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m30.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m30.4s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', '-ac', '--ignore-obsolete'] 0m31.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', '-ac', '--ignore-obsolete'] 0m31.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m31.2s DUMP: 0.15.6 0m31.2s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m31.2s INFO: Running adequate version 0.15.6 now. 0m31.2s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'sim4db'] 0m31.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'sim4db'] 0m31.5s INFO: Running scripts pre_remove 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m31.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m31.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_exceptions'] 0m32.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/pre_remove_exceptions'] 0m32.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m32.7s DUMP: install ok installed apt apt 2.5.4 install ok installed base-files base-files 12.3 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2 install ok installed bsdutils bsdutils 1:2.38.1-4 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.11+git20210903+057cd650a4ed-9 install ok installed debconf debconf 1.5.81 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1 install ok installed debianutils debianutils 5.7-0.4 install ok installed diffutils diffutils 1:3.8-3 install ok installed dpkg dpkg 1.21.15 install ok installed e2fsprogs e2fsprogs 1.46.6~rc1-1+b1 install ok installed findutils findutils 4.9.0-3 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-13 install ok installed gpgv gpgv 2.2.40-1 install ok installed grep grep 3.8-3 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-2 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.5.4 install ok installed libattr1:amd64 libattr1 1:2.5.1-3 install ok installed libaudit-common libaudit-common 1:3.0.7-1.1 install ok installed libaudit1:amd64 libaudit1 1:3.0.7-1.1+b2 install ok installed libblkid1:amd64 libblkid1 2.38.1-4 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-7 install ok installed libc6:amd64 libc6 2.36-7 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b2 install ok installed libcap2:amd64 libcap2 1:2.66-3 install ok installed libcom-err2:amd64 libcom-err2 1.46.6~rc1-1+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.10 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.266 install ok installed libext2fs2:amd64 libext2fs2 1.46.6~rc1-1+b1 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libfile-find-rule-perl libfile-find-rule-perl 0.34-3 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-13 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.8-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.0-0.1 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-4 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnumber-compare-perl libnumber-compare-perl 0.03-3 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-5 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-5 install ok installed libpam-runtime libpam-runtime 1.5.2-5 install ok installed libpam0g:amd64 libpam0g 1.5.2-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-6 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b2 install ok installed libselinux1:amd64 libselinux1 3.4-1+b4 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b4 install ok installed libsepol2:amd64 libsepol2 3.4-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-4 install ok installed libss2:amd64 libss2 1.46.6~rc1-1+b1 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-13 install ok installed libsystemd0:amd64 libsystemd0 252.4-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtext-glob-perl libtext-glob-perl 0.11-3 install ok installed libtinfo6:amd64 libtinfo6 6.4-1 install ok installed libudev1:amd64 libudev1 252.4-1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-4 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.2+dfsg2-3 install ok installed login login 1:4.13+dfsg1-1 install ok installed logsave logsave 1.46.6~rc1-1+b1 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-4 install ok installed ncurses-base ncurses-base 6.4-1 install ok installed ncurses-bin ncurses-bin 6.4-1 install ok installed passwd passwd 1:4.13+dfsg1-1 install ok installed perl perl 5.36.0-6 install ok installed perl-base perl-base 5.36.0-6 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-6 install ok installed sed sed 4.8-1.1 install ok installed sim4db sim4db 0~20150903+r2013-8+b3 install ok installed sysvinit-utils sysvinit-utils 3.06-2 install ok installed tar tar 1.34+dfsg-1.1 install ok installed tzdata tzdata 2022g-1 install ok installed usr-is-merged usr-is-merged 35 install ok installed usrmerge usrmerge 35 install ok installed util-linux util-linux 2.38.1-4 install ok installed util-linux-extra util-linux-extra 2.38.1-4 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m32.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m32.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', 'remove', 'sim4db'] 0m33.4s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: sim4db 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded. After this operation, 3387 kB disk space will be freed. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8107 files and directories currently installed.) Removing sim4db (0~20150903+r2013-8+b3) ... 0m33.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', 'remove', 'sim4db'] 0m33.4s INFO: Running scripts post_remove 0m33.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_remove_exceptions'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_remove_exceptions'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg', '--purge', 'sim4db'] 0m33.5s DUMP: dpkg: warning: ignoring request to remove sim4db which isn't installed 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg', '--purge', 'sim4db'] 0m33.5s INFO: Running scripts post_purge 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_purge_exceptions'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_purge_exceptions'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg', '--purge', '--pending'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg', '--purge', '--pending'] 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg', '--remove', '--pending'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg', '--remove', '--pending'] 0m33.5s INFO: Running scripts post_test 0m33.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_test_exceptions'] 0m33.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'tmp/scripts/post_test_exceptions'] 0m33.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m33.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg-divert', '--list'] 0m33.8s 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 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'dpkg-divert', '--list'] 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', 'clean'] 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o', 'apt-get', 'clean'] 0m33.8s DEBUG: Recording chroot state 0m34.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/shm'] 0m34.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/shm'] 0m34.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/console'] 0m34.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/console'] 0m34.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/ptmx'] 0m34.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/ptmx'] 0m34.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/pts'] 0m34.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/dev/pts'] 0m34.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/proc'] 0m34.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o/proc'] 0m34.6s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m34.7s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp7cggjl9o'] 0m34.7s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp7cggjl9o 0m34.7s INFO: PASS: Upgrading between Debian distributions. 0m34.7s INFO: PASS: All tests. 0m34.7s INFO: piuparts run ends. ret=0 End: 2023-01-03 17:59:04 GMT