Start: 2024-12-01 15:17:35 GMT [testing] Package: bioperl-run Version: 1.7.3-12 Installed-Size: 89 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, bioperl (>= 1.7.4), libbio-perl-run-perl (= 1.7.3-12), libbio-featureio-perl, libbio-cluster-perl, libtest-requiresinternet-perl, libbio-eutilities-perl, libbio-tools-run-remoteblast-perl, libsoap-lite-perl, default-jdk-headless Recommends: amap-align, ncbi-blast+-legacy, bwa, exonerate, kalign, maq, mafft, muscle, ncoils, phylip, primer3, probalign, probcons, raxml, sim4, t-coffee, wise, lagan, pal2nal Suggests: gmap, fasta3, trnascan-se, bedtools, bowtie, clustalw, emboss, hmmer, hyphy-pt | hyphy-mpi, infernal, libbio-tools-run-alignment-clustalw-perl, pftools, phyml, samtools, tigr-glimmer Description: BioPerl wrappers: scripts Homepage: https://metacpan.org/release/BioPerl-Run Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.7.3-12_all.deb Size: 36268 MD5sum: 0b8b253390664b458b7a95625016ac53 SHA256: e7130d811621c859c20b8b0cd07fef99d2852a44ab93933336dab730f9b67e7e [sid] Package: bioperl-run Version: 1.7.3-13 Installed-Size: 89 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, bioperl (>= 1.7.4), libbio-perl-run-perl (= 1.7.3-13), libbio-featureio-perl, libbio-cluster-perl, libtest-requiresinternet-perl, libbio-eutilities-perl, libbio-tools-run-remoteblast-perl, libsoap-lite-perl, default-jdk-headless Recommends: amap-align, ncbi-blast+-legacy, bwa, exonerate, kalign, maq, mafft, muscle, ncoils, phylip, primer3, probalign, probcons, raxml, sim4, t-coffee, wise, lagan, pal2nal Suggests: gmap, fasta3, trnascan-se, bedtools, bowtie, clustalw, emboss, hmmer, hyphy-pt | hyphy-mpi, infernal, libbio-tools-run-alignment-clustalw-perl, pftools, phyml, samtools, tigr-glimmer Description: BioPerl wrappers: scripts Homepage: https://metacpan.org/release/BioPerl-Run Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.7.3-13_all.deb Size: 36432 MD5sum: 7396c72f750bef0ae2fe55333295eee0 SHA256: 18fdd1bace57347f20349fae3b8524e28971c4297c7552aaf0120df04cf1b8e0 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt bioperl-run=1.7.3-13 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.4.5~202409272043~1.4.4-4-gf0f1b5e8 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt bioperl-run=1.7.3-13 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-33-amd64 #1 SMP Debian 5.10.226-1 (2024-10-03) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpdia_dek_ 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpdia_dek_ 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/proc'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/pts'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/shm'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/shm'] 0m0.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m0.3s DEBUG: Created policy-rc.d and chmodded it. 0m0.3s DEBUG: Created resolv.conf. 0m0.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpdia_dek_/tmp/scripts/ 0m0.3s INFO: Running scripts post_chroot_unpack 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', 'update'] 0m1.6s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [172 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9371 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6270 kB] Fetched 15.8 MB in 1s (18.1 MB/s) Reading package lists... 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', 'update'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: libcap-ng0 libseccomp2 libsystemd0 libudev1 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 660 kB of archives. After this operation, 6144 B of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 libcap-ng0 amd64 0.8.5-4 [17.3 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libseccomp2 amd64 2.5.5-2 [47.8 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libsystemd0 amd64 257~rc3-1 [448 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 libudev1 amd64 257~rc3-1 [147 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 660 kB in 0s (31.5 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 ... 5150 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.8.5-4_amd64.deb ... Unpacking libcap-ng0:amd64 (0.8.5-4) over (0.8.5-3+b1) ... Setting up libcap-ng0:amd64 (0.8.5-4) ... (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 ... 5149 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.5.5-2_amd64.deb ... Unpacking libseccomp2:amd64 (2.5.5-2) over (2.5.5-1+b3) ... Setting up libseccomp2:amd64 (2.5.5-2) ... (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 ... 5148 files and directories currently installed.) Preparing to unpack .../libsystemd0_257~rc3-1_amd64.deb ... Unpacking libsystemd0:amd64 (257~rc3-1) over (257~rc2-3) ... Setting up libsystemd0:amd64 (257~rc3-1) ... (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 ... 5148 files and directories currently installed.) Preparing to unpack .../libudev1_257~rc3-1_amd64.deb ... Unpacking libudev1:amd64 (257~rc3-1) over (257~rc2-3) ... Setting up libudev1:amd64 (257~rc3-1) ... Processing triggers for libc-bin (2.40-3) ... 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-yf', 'dist-upgrade'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.3s DUMP: 47a681c0f1188c7670a40dfeb0d16434 - 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.3s INFO: Running scripts post_setup 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_dummy_users'] 0m2.7s 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 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_dummy_users'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_forbid_home'] 0m2.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_forbid_home'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.7s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_minimize'] 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_minimize'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_zz_backports'] 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_setup_zz_backports'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.7s DUMP: install ok installed apt apt 2.9.14 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.32-1+b2 install ok installed bsdutils bsdutils 1:2.40.2-11 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.21 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1+b1 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.14 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2 install ok installed libblkid1:amd64 libblkid1 2.40.2-11 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-3 install ok installed libc6:amd64 libc6 2.40-3 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.273 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1+b1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b2 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-4 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.40.2-11 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-4 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3+b1 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2+b1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-11 install ok installed libss2:amd64 libss2 1.47.1-1+b1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsystemd0:amd64 libsystemd0 257~rc3-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libudev1:amd64 libudev1 257~rc3-1 install ok installed libunistring5:amd64 libunistring5 1.2-1+b1 install ok installed libuuid1:amd64 libuuid1 2.40.2-11 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-11 install ok installed login.defs login.defs 1:4.16.0-5 install ok installed logsave logsave 1.47.1-1+b1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-11 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-5 install ok installed perl-base perl-base 5.40.0-8 install ok installed sed sed 4.9-2 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-3 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-11 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.7s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m2.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m2.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m2.9s INFO: Running scripts is_testable 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/is_testable_uninstallable'] 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/is_testable_uninstallable'] 0m3.0s INFO: Running scripts pre_test 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_test_exceptions'] 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_test_exceptions'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_test_root_password'] 0m3.0s DUMP: New password: Retype new password: passwd: password updated successfully 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_test_root_password'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'show', '--no-all-versions', 'bioperl-run'] 0m3.1s DUMP: Package: bioperl-run Version: 1.7.3-12 Installed-Size: 89 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, bioperl (>= 1.7.4), libbio-perl-run-perl (= 1.7.3-12), libbio-featureio-perl, libbio-cluster-perl, libtest-requiresinternet-perl, libbio-eutilities-perl, libbio-tools-run-remoteblast-perl, libsoap-lite-perl, default-jdk-headless Recommends: amap-align, ncbi-blast+-legacy, bwa, exonerate, kalign, maq, mafft, muscle, ncoils, phylip, primer3, probalign, probcons, raxml, sim4, t-coffee, wise, lagan, pal2nal Suggests: gmap, fasta3, trnascan-se, bedtools, bowtie, clustalw, emboss, hmmer, hyphy-pt | hyphy-mpi, infernal, libbio-tools-run-alignment-clustalw-perl, pftools, phyml, samtools, tigr-glimmer Description-en: BioPerl wrappers: scripts Contains scripts from the BioPerl-Run package. This package will also install all wrappable applications packaged in Debian. The ones that are not Free are "Suggested" by this package. Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Homepage: https://metacpan.org/release/BioPerl-Run Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.7.3-12_all.deb Size: 36268 MD5sum: 0b8b253390664b458b7a95625016ac53 SHA256: e7130d811621c859c20b8b0cd07fef99d2852a44ab93933336dab730f9b67e7e 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'show', '--no-all-versions', 'bioperl-run'] 0m3.1s INFO: apt-cache knows about the following packages: bioperl-run 0m3.1s INFO: Running scripts pre_install 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_database-server'] 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_database-server'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_exceptions'] 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_exceptions'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_extras'] 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_extras'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy'] 0m3.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy', 'bioperl-run'] 0m3.2s DUMP: bioperl-run: Installed: (none) Candidate: 1.7.3-12 Version table: 1.7.3-12 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy', 'bioperl-run'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-y', 'install', 'bioperl-run'] 0m14.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: bioperl ca-certificates ca-certificates-java default-jdk-headless default-jre-headless java-common libalgorithm-diff-perl libbio-asn1-entrezgene-perl libbio-cluster-perl libbio-eutilities-perl libbio-featureio-perl libbio-perl-perl libbio-perl-run-perl libbio-tools-run-remoteblast-perl libbio-variation-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-inspector-perl libclone-perl libconvert-binhex-perl libdata-stag-perl libdevel-stacktrace-perl libencode-locale-perl libexception-class-perl libexpat1 libfcgi-perl libfcgi0t64 libfile-listing-perl libfile-slurp-tiny-perl libfile-sort-perl libgdbm-compat4t64 libgdbm6t64 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu72 libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libjpeg62-turbo liblcms2-2 liblwp-mediatypes-perl liblwp-protocol-https-perl libmailtools-perl libmime-tools-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnspr4 libnss3 libpcsclite1 libperl5.40 libsoap-lite-perl libsqlite3-0 libsub-uplevel-perl libtask-weaken-perl libtest-deep-perl libtest-differences-perl libtest-exception-perl libtest-most-perl libtest-requiresinternet-perl libtest-warn-perl libtext-csv-perl libtext-diff-perl libtimedate-perl libtree-dagnode-perl libtry-tiny-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-dom-perl libxml-dom-xpath-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpathengine-perl libxml2 netbase openjdk-21-jdk-headless openjdk-21-jre-headless openssl perl perl-modules-5.40 perl-openssl-defaults sensible-utils ucf Suggested packages: groff-base gmap fasta3 trnascan-se bedtools bowtie clustalw emboss hmmer hyphy-pt | hyphy-mpi infernal libbio-tools-run-alignment-clustalw-perl pftools phyml samtools tigr-glimmer default-jre libxml-sax-expatxs-perl gdbm-l10n libdata-dump-perl liblcms2-utils libcrypt-ssleay-perl pcscd libapache2-mod-perl2 libmime-lite-perl libnet-jabber-perl libsub-name-perl libbusiness-isbn-perl libmime-base32-perl libregexp-ipv6-perl libauthen-ntlm-perl libunicode-map8-perl libunicode-string-perl xml-twig-tools openjdk-21-demo openjdk-21-source libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl debhelper Recommended packages: perl-doc libcache-cache-perl libdbi-perl libgd-gd2-perl libapache-dbi-perl libyaml-perl libace-perl liblist-moreutils-perl libset-scalar-perl amap-align ncbi-blast+-legacy bwa exonerate kalign maq mafft muscle ncoils phylip primer3 probalign probcons raxml sim4 t-coffee wise lagan pal2nal libalgorithm-diff-xs-perl libalgorithm-munkres-perl libarray-compare-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-tableextract-perl libpostscript-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl libsvg-graph-perl libxml-sax-writer-perl perl-tk libgd-gd2-perl | libgd-gd2-noxpm-perl libxml-libxslt-perl libmldbm-perl libfcgi-bin libhtml-format-perl libio-compress-brotli-perl libauthen-sasl-perl libxmlrpc-lite-perl libtext-csv-xs-perl libdata-dump-perl libhtml-form-perl libxml-sax-expat-perl libtext-iconv-perl libtie-ixhash-perl libcups2t64 libfontconfig1 libfreetype6 libharfbuzz0b libasound2t64 The following NEW packages will be installed: bioperl bioperl-run ca-certificates ca-certificates-java default-jdk-headless default-jre-headless java-common libalgorithm-diff-perl libbio-asn1-entrezgene-perl libbio-cluster-perl libbio-eutilities-perl libbio-featureio-perl libbio-perl-perl libbio-perl-run-perl libbio-tools-run-remoteblast-perl libbio-variation-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-inspector-perl libclone-perl libconvert-binhex-perl libdata-stag-perl libdevel-stacktrace-perl libencode-locale-perl libexception-class-perl libexpat1 libfcgi-perl libfcgi0t64 libfile-listing-perl libfile-slurp-tiny-perl libfile-sort-perl libgdbm-compat4t64 libgdbm6t64 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu72 libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libjpeg62-turbo liblcms2-2 liblwp-mediatypes-perl liblwp-protocol-https-perl libmailtools-perl libmime-tools-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnspr4 libnss3 libpcsclite1 libperl5.40 libsoap-lite-perl libsqlite3-0 libsub-uplevel-perl libtask-weaken-perl libtest-deep-perl libtest-differences-perl libtest-exception-perl libtest-most-perl libtest-requiresinternet-perl libtest-warn-perl libtext-csv-perl libtext-diff-perl libtimedate-perl libtree-dagnode-perl libtry-tiny-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-dom-perl libxml-dom-xpath-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpathengine-perl libxml2 netbase openjdk-21-jdk-headless openjdk-21-jre-headless openssl perl perl-modules-5.40 perl-openssl-defaults sensible-utils ucf 0 upgraded, 103 newly installed, 0 to remove and 0 not upgraded. Need to get 155 MB of archives. After this operation, 427 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 perl-modules-5.40 all 5.40.0-8 [3015 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libperl5.40 amd64 5.40.0-8 [4320 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 perl amd64 5.40.0-8 [267 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 libdata-stag-perl all 0.14-3 [448 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 libbio-perl-perl all 1.7.8-1 [2603 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libclass-data-inheritable-perl all 0.10-1 [8632 B] Get:15 http://deb.debian.org/debian trixie/main amd64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libtest-deep-perl all 1.204-1 [52.9 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libcapture-tiny-perl all 0.48-2 [24.6 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libalgorithm-diff-perl all 1.201-1 [43.3 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libtext-diff-perl all 1.45-2 [27.2 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libtest-differences-perl all 0.71-1 [17.9 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 libsub-uplevel-perl all 0.2800-3 [14.0 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 libtest-exception-perl all 0.43-3 [16.9 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 libtest-warn-perl all 0.37-2 [14.5 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 libtest-most-perl all 0.38-1 [25.1 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 bioperl all 1.7.8-1 [246 kB] Get:27 http://deb.debian.org/debian trixie/main amd64 libio-pty-perl amd64 1:1.20-1+b2 [34.3 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libipc-run-perl all 20231003.0-2 [101 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libfile-sort-perl all 1.01-3 [21.3 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libbio-perl-run-perl all 1.7.3-12 [528 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libfile-slurp-tiny-perl all 0.004-2 [7592 B] Get:32 http://deb.debian.org/debian trixie/main amd64 libtree-dagnode-perl all 1.32-1 [61.7 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 liburi-perl all 5.30-1 [105 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libhtml-parser-perl amd64 3.83-1+b1 [99.7 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get:43 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trixie/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libwww-perl all 6.77-1 [183 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libxml-parser-perl amd64 2.47-1+b3 [198 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libxml-perl all 0.08-4 [93.0 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libxml-regexp-perl all 0.04-1.1 [7500 B] Get:59 http://deb.debian.org/debian trixie/main amd64 libxml-dom-perl all 1.46-2 [152 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libxml-xpathengine-perl all 0.14-2 [33.5 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libxml-dom-xpath-perl all 0.14-4 [9352 B] Get:62 http://deb.debian.org/debian trixie/main amd64 libbio-featureio-perl all 1.6.905-2 [53.2 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libxml-twig-perl all 1:3.52-3 [177 kB] Get:64 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http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-5+b1 [314 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 libxml-simple-perl all 2.25-2 [69.8 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 libbio-eutilities-perl all 1.77-2 [124 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 libbio-tools-run-remoteblast-perl all 1.7.3-3 [17.5 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 libclass-inspector-perl all 1.36-3 [17.5 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libfcgi0t64 amd64 2.4.2-2.1+b1 [24.7 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 libfcgi-perl amd64 0.82+ds-3+b2 [25.3 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libhttp-daemon-perl all 6.16-1 [23.5 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 libio-sessiondata-perl all 1.03-3 [6316 B] Get:84 http://deb.debian.org/debian trixie/main amd64 libio-stringy-perl all 2.113-2 [48.3 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 libconvert-binhex-perl all 1.125-3 [27.4 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 libnet-smtp-ssl-perl all 1.04-2 [6548 B] Get:87 http://deb.debian.org/debian trixie/main amd64 libmailtools-perl all 2.22-1 [88.8 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 libmime-tools-perl all 5.515-1 [203 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 libtask-weaken-perl all 1.06-2 [9364 B] Get:90 http://deb.debian.org/debian trixie/main amd64 libsoap-lite-perl all 1.27-3 [239 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 java-common all 0.76 [6776 B] Get:93 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 libnspr4 amd64 2:4.36-1 [110 kB] Get:96 http://deb.debian.org/debian trixie/main amd64 libsqlite3-0 amd64 3.46.1-1 [913 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 libnss3 amd64 2:3.106-1 [1392 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 libpcsclite1 amd64 2.3.0-3 [55.8 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jre-headless amd64 21.0.5+11-1 [41.8 MB] Get:100 http://deb.debian.org/debian trixie/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get:101 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jdk-headless amd64 21.0.5+11-1 [82.8 MB] Get:102 http://deb.debian.org/debian trixie/main amd64 default-jdk-headless amd64 2:1.21-76 [1124 B] Get:103 http://deb.debian.org/debian trixie/main amd64 bioperl-run all 1.7.3-12 [36.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 155 MB in 6s (26.4 MB/s) Selecting previously unselected package netbase. (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 ... 5152 files and directories currently installed.) Preparing to unpack .../000-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../002-openssl_3.3.2-2_amd64.deb ... Unpacking openssl (3.3.2-2) ... 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Unpacking openjdk-21-jre-headless:amd64 (21.0.5+11-1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../099-default-jre-headless_2%3a1.21-76_amd64.deb ... Unpacking default-jre-headless (2:1.21-76) ... Selecting previously unselected package openjdk-21-jdk-headless:amd64. Preparing to unpack .../100-openjdk-21-jdk-headless_21.0.5+11-1_amd64.deb ... Unpacking openjdk-21-jdk-headless:amd64 (21.0.5+11-1) ... Selecting previously unselected package default-jdk-headless. Preparing to unpack .../101-default-jdk-headless_2%3a1.21-76_amd64.deb ... Unpacking default-jdk-headless (2:1.21-76) ... Selecting previously unselected package bioperl-run. Preparing to unpack .../102-bioperl-run_1.7.3-12_all.deb ... Unpacking bioperl-run (1.7.3-12) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up liblcms2-2:amd64 (2.16-2) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up libgdbm6t64:amd64 (1.24-2) ... Setting up java-common (0.76) ... Setting up libgdbm-compat4t64:amd64 (1.24-2) ... Setting up libfcgi0t64:amd64 (2.4.2-2.1+b1) ... Setting up libsqlite3-0:amd64 (3.46.1-1) ... Setting up perl-openssl-defaults:amd64 (7+b2) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libnspr4:amd64 (2:4.36-1) ... Setting up libpcsclite1:amd64 (2.3.0-3) ... Setting up perl-modules-5.40 (5.40.0-8) ... Setting up sensible-utils (0.0.24) ... Setting up netbase (6.4) ... Setting up openssl (3.3.2-2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libnss3:amd64 (2:3.106-1) ... Setting up libperl5.40:amd64 (5.40.0-8) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up perl (5.40.0-8) ... Setting up libclass-data-inheritable-perl (0.10-1) ... Setting up libxml-xpathengine-perl (0.14-2) ... Setting up libxml-writer-perl (0.900-2) ... Setting up libio-html-perl (1.004-3) ... Setting up ucf (3.0043+nmu1) ... Setting up libcapture-tiny-perl (0.48-2) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libfcgi-perl (0.82+ds-3+b2) ... Setting up libsub-uplevel-perl (0.2800-3) ... Setting up libdevel-stacktrace-perl (2.0500-1) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up liburi-perl (5.30-1) ... Setting up libfile-sort-perl (1.01-3) ... Setting up libtext-csv-perl (2.04-1) ... Setting up libnet-ssleay-perl:amd64 (1.94-2) ... Setting up libio-sessiondata-perl (1.03-3) ... Setting up libhttp-date-perl (6.06-1) ... Setting up libtask-weaken-perl (1.06-2) ... Setting up libfile-listing-perl (6.16-1) ... Setting up openjdk-21-jre-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libtest-requiresinternet-perl (0.05-4) ... Setting up libclass-inspector-perl (1.36-3) ... Setting up libtest-deep-perl (1.204-1) ... Setting up libxml-regexp-perl (0.04-1.1) ... Setting up libio-pty-perl (1:1.20-1+b2) ... Setting up libclone-perl:amd64 (0.47-1+b1) ... Setting up libalgorithm-diff-perl (1.201-1) ... Setting up libio-stringy-perl (2.113-2) ... Setting up libtest-warn-perl (0.37-2) ... Setting up libhtml-tagset-perl (3.24-1) ... Setting up libfile-slurp-tiny-perl (0.004-2) ... Setting up libconvert-binhex-perl (1.125-3) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up libtry-tiny-perl (0.32-1) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up libnet-http-perl (6.23-1) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libexception-class-perl (1.45-1) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up libio-string-perl (1.08-4) ... Setting up libtest-exception-perl (0.43-3) ... Setting up libtext-diff-perl (1.45-2) ... Setting up libipc-run-perl (20231003.0-2) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libtree-dagnode-perl (1.32-1) ... Setting up libdata-stag-perl (0.14-3) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b1) ... Setting up libbio-perl-perl (1.7.8-1) ... Setting up libio-socket-ssl-perl (2.089-1) ... Setting up libhttp-message-perl (7.00-2) ... Setting up libbio-perl-run-perl (1.7.3-12) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libtest-differences-perl (0.71-1) ... Setting up libxml-sax-perl (1.02+dfsg-4) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libnet-smtp-ssl-perl (1.04-2) ... Setting up libmailtools-perl (2.22-1) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-5+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libhttp-daemon-perl (6.16-1) ... Setting up libtest-most-perl (0.38-1) ... Setting up libmime-tools-perl (5.515-1) ... Setting up libxml-simple-perl (2.25-2) ... Setting up bioperl (1.7.8-1) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libwww-perl (6.77-1) ... Setting up libbio-tools-run-remoteblast-perl (1.7.3-3) ... Setting up libxml-parser-perl (2.47-1+b3) ... Setting up libxml-twig-perl (1:3.52-3) ... Setting up libbio-variation-perl (1.7.5-3) ... Setting up libxml-perl (0.08-4) ... Setting up libsoap-lite-perl (1.27-3) ... Setting up libbio-cluster-perl (1.7.3-6) ... Setting up libxml-dom-perl (1.46-2) ... Setting up libbio-asn1-entrezgene-perl (1.730-3) ... Setting up libxml-dom-xpath-perl (0.14-4) ... Setting up libbio-eutilities-perl (1.77-2) ... Setting up libbio-featureio-perl (1.6.905-2) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up openjdk-21-jdk-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up default-jdk-headless (2:1.21-76) ... Setting up bioperl-run (1.7.3-12) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. 0m14.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-y', 'install', 'bioperl-run'] 0m14.9s INFO: Running scripts post_install 0m14.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_install_exceptions'] 0m14.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_install_exceptions'] 0m14.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m15.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m15.3s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpdia_dek_ to sid 0m15.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m15.3s INFO: Running scripts pre_distupgrade 0m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_exceptions'] 0m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_exceptions'] 0m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m15.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m15.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', 'update'] 0m17.2s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [202 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.0 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7340 kB] Fetched 17.6 MB in 1s (12.2 MB/s) Reading package lists... 0m17.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', 'update'] 0m17.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-yf', 'dist-upgrade'] 0m18.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: apt bioperl-run e2fsprogs libapt-pkg6.0t64 libbio-perl-run-perl libc-bin libc6 libcom-err2 libdebconfclient0 libext2fs2t64 libgpg-error0 libss2 logsave 13 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 7473 kB of archives. After this operation, 45.1 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.40-4 [2804 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0t64 amd64 2.9.16 [1113 kB] Get:3 http://deb.debian.org/debian sid/main amd64 apt amd64 2.9.16 [1397 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.40-4 [626 kB] Get:5 http://deb.debian.org/debian sid/main amd64 logsave amd64 1.47.2~rc1-1 [23.5 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libext2fs2t64 amd64 1.47.2~rc1-1 [211 kB] Get:7 http://deb.debian.org/debian sid/main amd64 e2fsprogs amd64 1.47.2~rc1-1 [589 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.274 [10.1 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.51-2 [82.1 kB] Get:10 http://deb.debian.org/debian sid/main amd64 bioperl-run all 1.7.3-13 [36.4 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libbio-perl-run-perl all 1.7.3-13 [528 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.2~rc1-1 [23.6 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libss2 amd64 1.47.2~rc1-1 [28.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7473 kB in 0s (38.0 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 ... 11804 files and directories currently installed.) Preparing to unpack .../libc6_2.40-4_amd64.deb ... Unpacking libc6:amd64 (2.40-4) over (2.40-3) ... Setting up libc6:amd64 (2.40-4) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11804 files and directories currently installed.) Preparing to unpack .../logsave_1.47.2~rc1-1_amd64.deb ... Unpacking logsave (1.47.2~rc1-1) over (1.47.1-1+b1) ... Preparing to unpack .../libext2fs2t64_1.47.2~rc1-1_amd64.deb ... Leaving 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' Unpacking libext2fs2t64:amd64 (1.47.2~rc1-1) over (1.47.1-1+b1) ... Setting up libext2fs2t64:amd64 (1.47.2~rc1-1) ... (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 ... 11802 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.47.2~rc1-1_amd64.deb ... Unpacking e2fsprogs (1.47.2~rc1-1) over (1.47.1-1+b1) ... Preparing to unpack .../libdebconfclient0_0.274_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.274) over (0.273) ... Setting up libdebconfclient0:amd64 (0.274) ... (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 ... 11801 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.51-2_amd64.deb ... Unpacking libgpg-error0:amd64 (1.51-2) over (1.50-4) ... Setting up libgpg-error0:amd64 (1.51-2) ... (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 ... 11801 files and directories currently installed.) Preparing to unpack .../bioperl-run_1.7.3-13_all.deb ... Unpacking bioperl-run (1.7.3-13) over (1.7.3-12) ... Preparing to unpack .../libbio-perl-run-perl_1.7.3-13_all.deb ... Unpacking libbio-perl-run-perl (1.7.3-13) over (1.7.3-12) ... Preparing to unpack .../libcom-err2_1.47.2~rc1-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2~rc1-1) over (1.47.1-1+b1) ... Preparing to unpack .../libss2_1.47.2~rc1-1_amd64.deb ... Unpacking libss2:amd64 (1.47.2~rc1-1) over (1.47.1-1+b1) ... Setting up libbio-perl-run-perl (1.7.3-13) ... Setting up libcom-err2:amd64 (1.47.2~rc1-1) ... Setting up libss2:amd64 (1.47.2~rc1-1) ... Setting up logsave (1.47.2~rc1-1) ... Setting up bioperl-run (1.7.3-13) ... Setting up e2fsprogs (1.47.2~rc1-1) ... Processing triggers for libc-bin (2.40-4) ... 0m18.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-yf', 'dist-upgrade'] 0m18.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m19.4s DUMP: 88398c9a9e9667e922d6fc04c4b2df9a - 0m19.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m19.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'show', '--no-all-versions', 'bioperl-run'] 0m19.5s DUMP: Package: bioperl-run Version: 1.7.3-13 Installed-Size: 89 Maintainer: Debian Med Packaging Team Architecture: all Depends: perl:any, bioperl (>= 1.7.4), libbio-perl-run-perl (= 1.7.3-13), libbio-featureio-perl, libbio-cluster-perl, libtest-requiresinternet-perl, libbio-eutilities-perl, libbio-tools-run-remoteblast-perl, libsoap-lite-perl, default-jdk-headless Recommends: amap-align, ncbi-blast+-legacy, bwa, exonerate, kalign, maq, mafft, muscle, ncoils, phylip, primer3, probalign, probcons, raxml, sim4, t-coffee, wise, lagan, pal2nal Suggests: gmap, fasta3, trnascan-se, bedtools, bowtie, clustalw, emboss, hmmer, hyphy-pt | hyphy-mpi, infernal, libbio-tools-run-alignment-clustalw-perl, pftools, phyml, samtools, tigr-glimmer Description-en: BioPerl wrappers: scripts Contains scripts from the BioPerl-Run package. This package will also install all wrappable applications packaged in Debian. The ones that are not Free are "Suggested" by this package. Description-md5: 7ae0a3a7ce278987fe66fde47a91ee2f Homepage: https://metacpan.org/release/BioPerl-Run Tag: field::biology, field::biology:bioinformatics, implemented-in::perl, interface::commandline, role::program Section: science Priority: optional Filename: pool/main/b/bioperl-run/bioperl-run_1.7.3-13_all.deb Size: 36432 MD5sum: 7396c72f750bef0ae2fe55333295eee0 SHA256: 18fdd1bace57347f20349fae3b8524e28971c4297c7552aaf0120df04cf1b8e0 0m19.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'show', '--no-all-versions', 'bioperl-run'] 0m19.5s INFO: apt-cache knows about the following packages: bioperl-run 0m19.5s INFO: Running scripts pre_install 0m19.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_database-server'] 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_database-server'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_exceptions'] 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_exceptions'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_extras'] 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_extras'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture'] 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy'] 0m19.6s 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: 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy', 'bioperl-run'] 0m19.6s DUMP: bioperl-run: Installed: 1.7.3-13 Candidate: 1.7.3-13 Version table: *** 1.7.3-13 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m19.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy', 'bioperl-run'] 0m19.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-y', 'install', 'bioperl-run'] 0m19.8s DUMP: Reading package lists... Building dependency tree... Reading state information... bioperl-run is already the newest version (1.7.3-13). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m19.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-y', 'install', 'bioperl-run'] 0m19.8s INFO: Running scripts post_install 0m19.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_install_exceptions'] 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_install_exceptions'] 0m19.9s INFO: Running scripts post_distupgrade 0m19.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m19.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_exceptions'] 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_exceptions'] 0m19.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m19.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m19.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_zz_backports'] 0m19.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_distupgrade_zz_backports'] 0m19.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m20.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m20.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m20.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m20.7s INFO: Running scripts pre_install 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_database-server'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_database-server'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_exceptions'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_exceptions'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_extras'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_extras'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy'] 0m20.7s 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: 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy', 'bioperl-run'] 0m20.7s DUMP: bioperl-run: Installed: 1.7.3-13 Candidate: 1.7.3-13 Version table: *** 1.7.3-13 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m20.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-cache', 'policy', 'bioperl-run'] 0m20.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-y', 'install', 'bioperl-run=1.7.3-13'] 0m21.0s DUMP: Reading package lists... Building dependency tree... Reading state information... bioperl-run is already the newest version (1.7.3-13). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', '-y', 'install', 'bioperl-run=1.7.3-13'] 0m21.0s INFO: Running scripts post_install 0m21.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_install_exceptions'] 0m21.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_install_exceptions'] 0m21.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m21.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m21.7s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', '-ac', '--ignore-obsolete'] 0m22.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', '-ac', '--ignore-obsolete'] 0m22.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m22.9s DUMP: 0.15.6 0m22.9s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m22.9s INFO: Running adequate version 0.15.6 now. 0m22.9s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'bioperl-run'] 0m23.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'bioperl-run'] 0m23.0s INFO: Running scripts pre_remove 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m23.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m23.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m23.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m23.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m23.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m23.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m23.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m23.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_exceptions'] 0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/pre_remove_exceptions'] 0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m23.7s DUMP: install ok installed apt apt 2.9.16 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.5 install ok installed bash bash 5.2.32-1+b2 install ok installed bioperl bioperl 1.7.8-1 install ok installed bioperl-run bioperl-run 1.7.3-13 install ok installed bsdutils bsdutils 1:2.40.2-11 install ok installed ca-certificates ca-certificates 20240203 install ok installed ca-certificates-java ca-certificates-java 20240118 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.21 install ok installed default-jdk-headless default-jdk-headless 2:1.21-76 install ok installed default-jre-headless default-jre-headless 2:1.21-76 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.2~rc1-1 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-8 install ok installed gpgv gpgv 2.2.45-2 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.67 install ok installed java-common java-common 0.76 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libalgorithm-diff-perl libalgorithm-diff-perl 1.201-1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.16 install ok installed libattr1:amd64 libattr1 1:2.5.2-2 install ok installed libaudit-common libaudit-common 1:4.0.2-2 install ok installed libaudit1:amd64 libaudit1 1:4.0.2-2 install ok installed libbio-asn1-entrezgene-perl libbio-asn1-entrezgene-perl 1.730-3 install ok installed libbio-cluster-perl libbio-cluster-perl 1.7.3-6 install ok installed libbio-eutilities-perl libbio-eutilities-perl 1.77-2 install ok installed libbio-featureio-perl libbio-featureio-perl 1.6.905-2 install ok installed libbio-perl-perl libbio-perl-perl 1.7.8-1 install ok installed libbio-perl-run-perl libbio-perl-run-perl 1.7.3-13 install ok installed libbio-tools-run-remoteblast-perl libbio-tools-run-remoteblast-perl 1.7.3-3 install ok installed libbio-variation-perl libbio-variation-perl 1.7.5-3 install ok installed libblkid1:amd64 libblkid1 2.40.2-11 install ok installed libbsd0:amd64 libbsd0 0.12.2-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.40-4 install ok installed libc6:amd64 libc6 2.40-4 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4 install ok installed libcap2:amd64 libcap2 1:2.66-5+b1 install ok installed libcapture-tiny-perl libcapture-tiny-perl 0.48-2 install ok installed libclass-data-inheritable-perl libclass-data-inheritable-perl 0.10-1 install ok installed libclass-inspector-perl libclass-inspector-perl 1.36-3 install ok installed libclone-perl:amd64 libclone-perl 0.47-1+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.2~rc1-1 install ok installed libconvert-binhex-perl libconvert-binhex-perl 1.125-3 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libdata-stag-perl libdata-stag-perl 0.14-3 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.274 install ok installed libdevel-stacktrace-perl libdevel-stacktrace-perl 2.0500-1 install ok installed libencode-locale-perl libencode-locale-perl 1.05-3 install ok installed libexception-class-perl libexception-class-perl 1.45-1 install ok installed libexpat1:amd64 libexpat1 2.6.4-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2~rc1-1 install ok installed libfcgi-perl libfcgi-perl 0.82+ds-3+b2 install ok installed libfcgi0t64:amd64 libfcgi0t64 2.4.2-2.1+b1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfile-listing-perl libfile-listing-perl 6.16-1 install ok installed libfile-slurp-tiny-perl libfile-slurp-tiny-perl 0.004-2 install ok installed libfile-sort-perl libfile-sort-perl 1.01-3 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-8 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.24-2 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.24-2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b2 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.8-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.51-2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libhtml-parser-perl:amd64 libhtml-parser-perl 3.83-1+b1 install ok installed libhtml-tagset-perl libhtml-tagset-perl 3.24-1 install ok installed libhtml-tree-perl libhtml-tree-perl 5.07-3 install ok installed libhttp-cookies-perl libhttp-cookies-perl 6.11-1 install ok installed libhttp-daemon-perl libhttp-daemon-perl 6.16-1 install ok installed libhttp-date-perl libhttp-date-perl 6.06-1 install ok installed libhttp-message-perl libhttp-message-perl 7.00-2 install ok installed libhttp-negotiate-perl libhttp-negotiate-perl 6.01-2 install ok installed libicu72:amd64 libicu72 72.1-5+b1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2+b1 install ok installed libio-html-perl libio-html-perl 1.004-3 install ok installed libio-pty-perl libio-pty-perl 1:1.20-1+b2 install ok installed libio-sessiondata-perl libio-sessiondata-perl 1.03-3 install ok installed libio-socket-ssl-perl libio-socket-ssl-perl 2.089-1 install ok installed libio-string-perl libio-string-perl 1.08-4 install ok installed libio-stringy-perl libio-stringy-perl 2.113-2 install ok installed libipc-run-perl libipc-run-perl 20231003.0-2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3+b1 install ok installed liblcms2-2:amd64 liblcms2-2 2.16-2 install ok installed liblwp-mediatypes-perl liblwp-mediatypes-perl 6.04-2 install ok installed liblwp-protocol-https-perl liblwp-protocol-https-perl 6.14-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3+b1 install ok installed liblzma5:amd64 liblzma5 5.6.3-1+b1 install ok installed libmailtools-perl libmailtools-perl 2.22-1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmime-tools-perl libmime-tools-perl 5.515-1 install ok installed libmount1:amd64 libmount1 2.40.2-11 install ok installed libnet-http-perl libnet-http-perl 6.23-1 install ok installed libnet-smtp-ssl-perl libnet-smtp-ssl-perl 1.04-2 install ok installed libnet-ssleay-perl:amd64 libnet-ssleay-perl 1.94-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libnspr4:amd64 libnspr4 2:4.36-1 install ok installed libnss3:amd64 libnss3 2:3.106-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7+b1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7+b1 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-4 install ok installed libpcsclite1:amd64 libpcsclite1 2.3.0-3 install ok installed libperl5.40:amd64 libperl5.40 5.40.0-8 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3+b1 install ok installed libsemanage-common libsemanage-common 3.7-2 install ok installed libsemanage2:amd64 libsemanage2 3.7-2+b1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-11 install ok installed libsoap-lite-perl libsoap-lite-perl 1.27-3 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-1 install ok installed libss2:amd64 libss2 1.47.2~rc1-1 install ok installed libssl3t64:amd64 libssl3t64 3.3.2-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-8 install ok installed libsub-uplevel-perl libsub-uplevel-perl 0.2800-3 install ok installed libsystemd0:amd64 libsystemd0 257~rc3-1 install ok installed libtask-weaken-perl libtask-weaken-perl 1.06-2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b3 install ok installed libtest-deep-perl libtest-deep-perl 1.204-1 install ok installed libtest-differences-perl libtest-differences-perl 0.71-1 install ok installed libtest-exception-perl libtest-exception-perl 0.43-3 install ok installed libtest-most-perl libtest-most-perl 0.38-1 install ok installed libtest-requiresinternet-perl libtest-requiresinternet-perl 0.05-4 install ok installed libtest-warn-perl libtest-warn-perl 0.37-2 install ok installed libtext-csv-perl libtext-csv-perl 2.04-1 install ok installed libtext-diff-perl libtext-diff-perl 1.45-2 install ok installed libtimedate-perl libtimedate-perl 2.3300-2 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libtree-dagnode-perl libtree-dagnode-perl 1.32-1 install ok installed libtry-tiny-perl libtry-tiny-perl 0.32-1 install ok installed libudev1:amd64 libudev1 257~rc3-1 install ok installed libunistring5:amd64 libunistring5 1.2-1+b1 install ok installed liburi-perl liburi-perl 5.30-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-11 install ok installed libwww-perl libwww-perl 6.77-1 install ok installed libwww-robotrules-perl libwww-robotrules-perl 6.02-1 install ok installed libxml-dom-perl libxml-dom-perl 1.46-2 install ok installed libxml-dom-xpath-perl libxml-dom-xpath-perl 0.14-4 install ok installed libxml-libxml-perl libxml-libxml-perl 2.0207+dfsg+really+2.0134-5+b1 install ok installed libxml-namespacesupport-perl libxml-namespacesupport-perl 1.12-2 install ok installed libxml-parser-perl libxml-parser-perl 2.47-1+b3 install ok installed libxml-perl libxml-perl 0.08-4 install ok installed libxml-regexp-perl libxml-regexp-perl 0.04-1.1 install ok installed libxml-sax-base-perl libxml-sax-base-perl 1.09-3 install ok installed libxml-sax-perl libxml-sax-perl 1.02+dfsg-4 install ok installed libxml-simple-perl libxml-simple-perl 2.25-2 install ok installed libxml-twig-perl libxml-twig-perl 1:3.52-3 install ok installed libxml-writer-perl libxml-writer-perl 0.900-2 install ok installed libxml-xpathengine-perl libxml-xpathengine-perl 0.14-2 install ok installed libxml2:amd64 libxml2 2.12.7+dfsg+really2.9.14-0.2+b1 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1+b1 install ok installed login login 1:4.16.0-2+really2.40.2-11 install ok installed login.defs login.defs 1:4.16.0-5 install ok installed logsave logsave 1.47.2~rc1-1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.2-11 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2+b1 install ok installed netbase netbase 6.4 install ok installed openjdk-21-jdk-headless:amd64 openjdk-21-jdk-headless 21.0.5+11-1 install ok installed openjdk-21-jre-headless:amd64 openjdk-21-jre-headless 21.0.5+11-1 install ok installed openssl openssl 3.3.2-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.2-2 install ok installed passwd passwd 1:4.16.0-5 install ok installed perl perl 5.40.0-8 install ok installed perl-base perl-base 5.40.0-8 install ok installed perl-modules-5.40 perl-modules-5.40 5.40.0-8 install ok installed perl-openssl-defaults:amd64 perl-openssl-defaults 7+b2 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.24 install ok installed sysvinit-utils sysvinit-utils 3.11-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024b-3 install ok installed ucf ucf 3.0043+nmu1 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-11 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m23.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m23.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', 'remove', 'bioperl', 'ca-certificates', 'ca-certificates-java', 'default-jdk-headless', 'default-jre-headless', 'java-common', 'libalgorithm-diff-perl', 'libbio-asn1-entrezgene-perl', 'libbio-cluster-perl', 'libbio-eutilities-perl', 'libbio-featureio-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbio-tools-run-remoteblast-perl', 'libbio-variation-perl', 'libcapture-tiny-perl', 'libclass-data-inheritable-perl', 'libclass-inspector-perl', 'libclone-perl:amd64', 'libconvert-binhex-perl', 'libdata-stag-perl', 'libdevel-stacktrace-perl', 'libencode-locale-perl', 'libexception-class-perl', 'libexpat1:amd64', 'libfcgi-perl', 'libfcgi0t64:amd64', 'libfile-listing-perl', 'libfile-slurp-tiny-perl', 'libfile-sort-perl', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libhtml-parser-perl:amd64', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu72:amd64', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libjpeg62-turbo:amd64', 'liblcms2-2:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmailtools-perl', 'libmime-tools-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.40:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libsub-uplevel-perl', 'libtask-weaken-perl', 'libtest-deep-perl', 'libtest-differences-perl', 'libtest-exception-perl', 'libtest-most-perl', 'libtest-requiresinternet-perl', 'libtest-warn-perl', 'libtext-csv-perl', 'libtext-diff-perl', 'libtimedate-perl', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'netbase', 'openjdk-21-jdk-headless:amd64', 'openjdk-21-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'perl-openssl-defaults:amd64', 'sensible-utils', 'ucf', 'bioperl-run'] 0m24.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bioperl bioperl-run ca-certificates ca-certificates-java default-jdk-headless default-jre-headless java-common libalgorithm-diff-perl libbio-asn1-entrezgene-perl libbio-cluster-perl libbio-eutilities-perl libbio-featureio-perl libbio-perl-perl libbio-perl-run-perl libbio-tools-run-remoteblast-perl libbio-variation-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-inspector-perl libclone-perl libconvert-binhex-perl libdata-stag-perl libdevel-stacktrace-perl libencode-locale-perl libexception-class-perl libexpat1 libfcgi-perl libfcgi0t64 libfile-listing-perl libfile-slurp-tiny-perl libfile-sort-perl libgdbm-compat4t64 libgdbm6t64 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu72 libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libjpeg62-turbo liblcms2-2 liblwp-mediatypes-perl liblwp-protocol-https-perl libmailtools-perl libmime-tools-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnspr4 libnss3 libpcsclite1 libperl5.40 libsoap-lite-perl libsqlite3-0 libsub-uplevel-perl libtask-weaken-perl libtest-deep-perl libtest-differences-perl libtest-exception-perl libtest-most-perl libtest-requiresinternet-perl libtest-warn-perl libtext-csv-perl libtext-diff-perl libtimedate-perl libtree-dagnode-perl libtry-tiny-perl liburi-perl libwww-perl libwww-robotrules-perl libxml-dom-perl libxml-dom-xpath-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpathengine-perl libxml2 netbase openjdk-21-jdk-headless openjdk-21-jre-headless openssl perl perl-modules-5.40 perl-openssl-defaults sensible-utils ucf 0 upgraded, 0 newly installed, 103 to remove and 0 not upgraded. After this operation, 427 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 ... 11799 files and directories currently installed.) Removing bioperl-run (1.7.3-13) ... Removing bioperl (1.7.8-1) ... Removing default-jdk-headless (2:1.21-76) ... Removing openjdk-21-jdk-headless:amd64 (21.0.5+11-1) ... Removing default-jre-headless (2:1.21-76) ... Removing openjdk-21-jre-headless:amd64 (21.0.5+11-1) ... Removing ca-certificates-java (20240118) ... Removing libbio-eutilities-perl (1.77-2) ... Removing libbio-asn1-entrezgene-perl (1.730-3) ... Removing libbio-cluster-perl (1.7.3-6) ... Removing libbio-variation-perl (1.7.5-3) ... Removing libxml-twig-perl (1:3.52-3) ... Removing java-common (0.76) ... Removing libtest-most-perl (0.38-1) ... Removing libtest-differences-perl (0.71-1) ... Removing libtext-diff-perl (1.45-2) ... Removing libalgorithm-diff-perl (1.201-1) ... Removing libbio-featureio-perl (1.6.905-2) ... Removing libbio-tools-run-remoteblast-perl (1.7.3-3) ... Removing libbio-perl-run-perl (1.7.3-13) ... Removing libcapture-tiny-perl (0.48-2) ... Removing libexception-class-perl (1.45-1) ... Removing libclass-data-inheritable-perl (0.10-1) ... Removing libsoap-lite-perl (1.27-3) ... Removing libclass-inspector-perl (1.36-3) ... Removing libmime-tools-perl (5.515-1) ... Removing libconvert-binhex-perl (1.125-3) ... Removing libdevel-stacktrace-perl (2.0500-1) ... Removing libfcgi-perl (0.82+ds-3+b2) ... Removing libfcgi0t64:amd64 (2.4.2-2.1+b1) ... Removing libtree-dagnode-perl (1.32-1) ... Removing libfile-slurp-tiny-perl (0.004-2) ... Removing libfile-sort-perl (1.01-3) ... Removing libxml-simple-perl (2.25-2) ... Removing libxml-libxml-perl (2.0207+dfsg+really+2.0134-5+b1) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Unregistering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Removing libxml-dom-xpath-perl (0.14-4) ... Removing libxml-xpathengine-perl (0.14-2) ... Removing libhttp-daemon-perl (6.16-1) ... Removing libtest-deep-perl (1.204-1) ... Removing libmailtools-perl (2.22-1) ... Removing libnet-smtp-ssl-perl (1.04-2) ... Removing libxml-writer-perl (0.900-2) ... Removing libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Removing libicu72:amd64 (72.1-5+b1) ... Removing libipc-run-perl (20231003.0-2) ... Removing libio-pty-perl (1:1.20-1+b2) ... Removing libio-sessiondata-perl (1.03-3) ... Removing libio-stringy-perl (2.113-2) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Removing liblcms2-2:amd64 (2.16-2) ... Removing libnss3:amd64 (2:3.106-1) ... Removing libnspr4:amd64 (2:4.36-1) ... Removing libpcsclite1:amd64 (2.3.0-3) ... Removing libsqlite3-0:amd64 (3.46.1-1) ... Removing libtest-warn-perl (0.37-2) ... Removing libtest-exception-perl (0.43-3) ... Removing libsub-uplevel-perl (0.2800-3) ... Removing libtask-weaken-perl (1.06-2) ... Removing libtest-requiresinternet-perl (0.05-4) ... Removing libtext-csv-perl (2.04-1) ... Removing libxml-dom-perl (1.46-2) ... Removing libxml-sax-perl (1.02+dfsg-4) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::SAX::PurePerl with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Removing libxml-namespacesupport-perl (1.12-2) ... Removing libxml-perl (0.08-4) ... Removing libxml-regexp-perl (0.04-1.1) ... Removing libxml-sax-base-perl (1.09-3) ... Removing ucf (3.0043+nmu1) ... Removing sensible-utils (0.0.24) ... Removing libxml-parser-perl (2.47-1+b3) ... Removing libbio-perl-perl (1.7.8-1) ... Removing libdata-stag-perl (0.14-3) ... Removing libexpat1:amd64 (2.6.4-1) ... Removing libio-string-perl (1.08-4) ... Removing libwww-perl (6.77-1) ... Removing libhttp-negotiate-perl (6.01-2) ... Removing libfile-listing-perl (6.16-1) ... Removing libhttp-cookies-perl (6.11-1) ... Removing libwww-robotrules-perl (6.02-1) ... Removing liblwp-protocol-https-perl (6.14-1) ... Removing libnet-http-perl (6.23-1) ... Removing libio-socket-ssl-perl (2.089-1) ... Removing libnet-ssleay-perl:amd64 (1.94-2) ... Removing libhtml-tree-perl (5.07-3) ... Removing libhtml-parser-perl:amd64 (3.83-1+b1) ... Removing libhtml-tagset-perl (3.24-1) ... Removing libtry-tiny-perl (0.32-1) ... Removing netbase (6.4) ... Removing perl-openssl-defaults:amd64 (7+b2) ... Removing ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libhttp-message-perl (7.00-2) ... Removing libclone-perl:amd64 (0.47-1+b1) ... Removing libencode-locale-perl (1.05-3) ... Removing libhttp-date-perl (6.06-1) ... Removing liburi-perl (5.30-1) ... Removing libio-html-perl (1.004-3) ... Removing liblwp-mediatypes-perl (6.04-2) ... Removing libtimedate-perl (2.3300-2) ... Removing openssl (3.3.2-2) ... Removing perl (5.40.0-8) ... Removing libperl5.40:amd64 (5.40.0-8) ... Removing libgdbm-compat4t64:amd64 (1.24-2) ... Removing libgdbm6t64:amd64 (1.24-2) ... Removing perl-modules-5.40 (5.40.0-8) ... Processing triggers for libc-bin (2.40-4) ... 0m24.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', 'remove', 'bioperl', 'ca-certificates', 'ca-certificates-java', 'default-jdk-headless', 'default-jre-headless', 'java-common', 'libalgorithm-diff-perl', 'libbio-asn1-entrezgene-perl', 'libbio-cluster-perl', 'libbio-eutilities-perl', 'libbio-featureio-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbio-tools-run-remoteblast-perl', 'libbio-variation-perl', 'libcapture-tiny-perl', 'libclass-data-inheritable-perl', 'libclass-inspector-perl', 'libclone-perl:amd64', 'libconvert-binhex-perl', 'libdata-stag-perl', 'libdevel-stacktrace-perl', 'libencode-locale-perl', 'libexception-class-perl', 'libexpat1:amd64', 'libfcgi-perl', 'libfcgi0t64:amd64', 'libfile-listing-perl', 'libfile-slurp-tiny-perl', 'libfile-sort-perl', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libhtml-parser-perl:amd64', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu72:amd64', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libjpeg62-turbo:amd64', 'liblcms2-2:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmailtools-perl', 'libmime-tools-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.40:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libsub-uplevel-perl', 'libtask-weaken-perl', 'libtest-deep-perl', 'libtest-differences-perl', 'libtest-exception-perl', 'libtest-most-perl', 'libtest-requiresinternet-perl', 'libtest-warn-perl', 'libtext-csv-perl', 'libtext-diff-perl', 'libtimedate-perl', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'netbase', 'openjdk-21-jdk-headless:amd64', 'openjdk-21-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'perl-openssl-defaults:amd64', 'sensible-utils', 'ucf', 'bioperl-run'] 0m24.8s INFO: Running scripts post_remove 0m24.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_remove_exceptions'] 0m24.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_remove_exceptions'] 0m24.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg', '--purge', 'bioperl', 'ca-certificates', 'ca-certificates-java', 'default-jdk-headless', 'default-jre-headless', 'java-common', 'libalgorithm-diff-perl', 'libbio-asn1-entrezgene-perl', 'libbio-cluster-perl', 'libbio-eutilities-perl', 'libbio-featureio-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbio-tools-run-remoteblast-perl', 'libbio-variation-perl', 'libcapture-tiny-perl', 'libclass-data-inheritable-perl', 'libclass-inspector-perl', 'libclone-perl:amd64', 'libconvert-binhex-perl', 'libdata-stag-perl', 'libdevel-stacktrace-perl', 'libencode-locale-perl', 'libexception-class-perl', 'libexpat1:amd64', 'libfcgi-perl', 'libfcgi0t64:amd64', 'libfile-listing-perl', 'libfile-slurp-tiny-perl', 'libfile-sort-perl', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libhtml-parser-perl:amd64', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu72:amd64', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libjpeg62-turbo:amd64', 'liblcms2-2:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmailtools-perl', 'libmime-tools-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.40:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libsub-uplevel-perl', 'libtask-weaken-perl', 'libtest-deep-perl', 'libtest-differences-perl', 'libtest-exception-perl', 'libtest-most-perl', 'libtest-requiresinternet-perl', 'libtest-warn-perl', 'libtext-csv-perl', 'libtext-diff-perl', 'libtimedate-perl', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'netbase', 'openjdk-21-jdk-headless:amd64', 'openjdk-21-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'perl-openssl-defaults:amd64', 'sensible-utils', 'ucf'] 0m25.0s DUMP: dpkg: warning: ignoring request to remove bioperl which isn't installed (Reading database ... 5198 files and directories currently installed.) Purging configuration files for ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates-java (20240118) ... dpkg: warning: ignoring request to remove default-jdk-headless which isn't installed dpkg: warning: ignoring request to remove default-jre-headless which isn't installed Purging configuration files for java-common (0.76) ... dpkg: warning: ignoring request to remove libalgorithm-diff-perl which isn't installed dpkg: warning: ignoring request to remove libbio-asn1-entrezgene-perl which isn't installed dpkg: warning: ignoring request to remove libbio-cluster-perl which isn't installed dpkg: warning: ignoring request to remove libbio-eutilities-perl which isn't installed dpkg: warning: ignoring request to remove libbio-featureio-perl which isn't installed dpkg: warning: ignoring request to remove libbio-perl-perl which isn't installed dpkg: warning: ignoring request to remove libbio-perl-run-perl which isn't installed dpkg: warning: ignoring request to remove libbio-tools-run-remoteblast-perl which isn't installed dpkg: warning: ignoring request to remove libbio-variation-perl which isn't installed dpkg: warning: ignoring request to remove libcapture-tiny-perl which isn't installed dpkg: warning: ignoring request to remove libclass-data-inheritable-perl which isn't installed dpkg: warning: ignoring request to remove libclass-inspector-perl which isn't installed dpkg: warning: ignoring request to remove libclone-perl which isn't installed dpkg: warning: ignoring request to remove libconvert-binhex-perl which isn't installed dpkg: warning: ignoring request to remove libdata-stag-perl which isn't installed dpkg: warning: ignoring request to remove libdevel-stacktrace-perl which isn't installed dpkg: warning: ignoring request to remove libencode-locale-perl which isn't installed dpkg: warning: ignoring request to remove libexception-class-perl which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfcgi-perl which isn't installed dpkg: warning: ignoring request to remove libfcgi0t64 which isn't installed dpkg: warning: ignoring request to remove libfile-listing-perl which isn't installed dpkg: warning: ignoring request to remove libfile-slurp-tiny-perl which isn't installed dpkg: warning: ignoring request to remove libfile-sort-perl which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4t64 which isn't installed dpkg: warning: ignoring request to remove libgdbm6t64 which isn't installed dpkg: warning: ignoring request to remove libhtml-parser-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-tagset-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-tree-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-cookies-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-daemon-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-date-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-message-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-negotiate-perl which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libio-html-perl which isn't installed dpkg: warning: ignoring request to remove libio-pty-perl which isn't installed dpkg: warning: ignoring request to remove libio-sessiondata-perl which isn't installed dpkg: warning: ignoring request to remove libio-socket-ssl-perl which isn't installed dpkg: warning: ignoring request to remove libio-string-perl which isn't installed dpkg: warning: ignoring request to remove libio-stringy-perl which isn't installed dpkg: warning: ignoring request to remove libipc-run-perl which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove liblwp-mediatypes-perl which isn't installed dpkg: warning: ignoring request to remove liblwp-protocol-https-perl which isn't installed dpkg: warning: ignoring request to remove libmailtools-perl which isn't installed dpkg: warning: ignoring request to remove libmime-tools-perl which isn't installed dpkg: warning: ignoring request to remove libnet-http-perl which isn't installed dpkg: warning: ignoring request to remove libnet-smtp-ssl-perl which isn't installed dpkg: warning: ignoring request to remove libnet-ssleay-perl which isn't installed dpkg: warning: ignoring request to remove libnspr4 which isn't installed dpkg: warning: ignoring request to remove libnss3 which isn't installed dpkg: warning: ignoring request to remove libpcsclite1 which isn't installed dpkg: warning: ignoring request to remove libperl5.40 which isn't installed dpkg: warning: ignoring request to remove libsoap-lite-perl which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libsub-uplevel-perl which isn't installed dpkg: warning: ignoring request to remove libtask-weaken-perl which isn't installed dpkg: warning: ignoring request to remove libtest-deep-perl which isn't installed dpkg: warning: ignoring request to remove libtest-differences-perl which isn't installed dpkg: warning: ignoring request to remove libtest-exception-perl which isn't installed dpkg: warning: ignoring request to remove libtest-most-perl which isn't installed dpkg: warning: ignoring request to remove libtest-requiresinternet-perl which isn't installed dpkg: warning: ignoring request to remove libtest-warn-perl which isn't installed dpkg: warning: ignoring request to remove libtext-csv-perl which isn't installed dpkg: warning: ignoring request to remove libtext-diff-perl which isn't installed dpkg: warning: ignoring request to remove libtimedate-perl which isn't installed dpkg: warning: ignoring request to remove libtree-dagnode-perl which isn't installed dpkg: warning: ignoring request to remove libtry-tiny-perl which isn't installed dpkg: warning: ignoring request to remove liburi-perl which isn't installed dpkg: warning: ignoring request to remove libwww-perl which isn't installed dpkg: warning: ignoring request to remove libwww-robotrules-perl which isn't installed dpkg: warning: ignoring request to remove libxml-dom-perl which isn't installed dpkg: warning: ignoring request to remove libxml-dom-xpath-perl which isn't installed dpkg: warning: ignoring request to remove libxml-libxml-perl which isn't installed dpkg: warning: ignoring request to remove libxml-namespacesupport-perl which isn't installed dpkg: warning: ignoring request to remove libxml-parser-perl which isn't installed dpkg: warning: ignoring request to remove libxml-perl which isn't installed dpkg: warning: ignoring request to remove libxml-regexp-perl which isn't installed dpkg: warning: ignoring request to remove libxml-sax-base-perl which isn't installed Purging configuration files for libxml-sax-perl (1.02+dfsg-4) ... dpkg: warning: ignoring request to remove libxml-simple-perl which isn't installed dpkg: warning: ignoring request to remove libxml-twig-perl which isn't installed dpkg: warning: ignoring request to remove libxml-writer-perl which isn't installed dpkg: warning: ignoring request to remove libxml-xpathengine-perl which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed Purging configuration files for netbase (6.4) ... dpkg: warning: ignoring request to remove openjdk-21-jdk-headless which isn't installed Purging configuration files for openjdk-21-jre-headless:amd64 (21.0.5+11-1) ... Purging configuration files for openssl (3.3.2-2) ... Purging configuration files for perl (5.40.0-8) ... dpkg: warning: ignoring request to remove perl-modules-5.40 which isn't installed dpkg: warning: ignoring request to remove perl-openssl-defaults which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for ucf (3.0043+nmu1) ... 0m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg', '--purge', 'bioperl', 'ca-certificates', 'ca-certificates-java', 'default-jdk-headless', 'default-jre-headless', 'java-common', 'libalgorithm-diff-perl', 'libbio-asn1-entrezgene-perl', 'libbio-cluster-perl', 'libbio-eutilities-perl', 'libbio-featureio-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbio-tools-run-remoteblast-perl', 'libbio-variation-perl', 'libcapture-tiny-perl', 'libclass-data-inheritable-perl', 'libclass-inspector-perl', 'libclone-perl:amd64', 'libconvert-binhex-perl', 'libdata-stag-perl', 'libdevel-stacktrace-perl', 'libencode-locale-perl', 'libexception-class-perl', 'libexpat1:amd64', 'libfcgi-perl', 'libfcgi0t64:amd64', 'libfile-listing-perl', 'libfile-slurp-tiny-perl', 'libfile-sort-perl', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libhtml-parser-perl:amd64', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libicu72:amd64', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libjpeg62-turbo:amd64', 'liblcms2-2:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmailtools-perl', 'libmime-tools-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libpcsclite1:amd64', 'libperl5.40:amd64', 'libsoap-lite-perl', 'libsqlite3-0:amd64', 'libsub-uplevel-perl', 'libtask-weaken-perl', 'libtest-deep-perl', 'libtest-differences-perl', 'libtest-exception-perl', 'libtest-most-perl', 'libtest-requiresinternet-perl', 'libtest-warn-perl', 'libtext-csv-perl', 'libtext-diff-perl', 'libtimedate-perl', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-libxml-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'netbase', 'openjdk-21-jdk-headless:amd64', 'openjdk-21-jre-headless:amd64', 'openssl', 'perl', 'perl-modules-5.40', 'perl-openssl-defaults:amd64', 'sensible-utils', 'ucf'] 0m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg', '--purge', 'bioperl-run'] 0m25.0s DUMP: dpkg: warning: ignoring request to remove bioperl-run which isn't installed 0m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg', '--purge', 'bioperl-run'] 0m25.0s INFO: Running scripts post_purge 0m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_purge_exceptions'] 0m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_purge_exceptions'] 0m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg', '--purge', '--pending'] 0m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg', '--purge', '--pending'] 0m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg', '--remove', '--pending'] 0m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg', '--remove', '--pending'] 0m25.0s INFO: Running scripts post_test 0m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_test_exceptions'] 0m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'tmp/scripts/post_test_exceptions'] 0m25.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m25.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m25.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg-divert', '--list'] 0m25.3s DUMP: diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files 0m25.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'dpkg-divert', '--list'] 0m25.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', 'clean'] 0m25.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpdia_dek_', 'apt-get', 'clean'] 0m25.3s DEBUG: Recording chroot state 0m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/shm'] 0m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/shm'] 0m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/console'] 0m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/console'] 0m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/ptmx'] 0m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/ptmx'] 0m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/pts'] 0m25.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/dev/pts'] 0m25.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/proc'] 0m25.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpdia_dek_/proc'] 0m25.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m25.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpdia_dek_'] 0m25.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpdia_dek_ 0m25.9s INFO: PASS: Upgrading between Debian distributions. 0m25.9s INFO: PASS: All tests. 0m25.9s INFO: piuparts run ends. ret=0 End: 2024-12-01 15:18:01 GMT