Start: 2025-02-06 21:33:46 GMT [testing] Package: python3-biopython Source: python-biopython (1.84+dfsg-4) Version: 1.84+dfsg-4+b2 Installed-Size: 12153 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-numpy (>= 1:1.25.0), python3-numpy-abi9, python3 (<< 3.14), python3 (>= 3.12~), python3:any, libc6 (>= 2.14), python3-reportlab (>= 4.0.4-1~), w3c-sgml-lib Recommends: python-biopython-doc (= 1.84+dfsg-4), ncbi-blast+ Suggests: python3-tk, bwa, clustalo, clustalw, dialign, dssp, emboss, fasttree, mafft, muscle3, phylip, phyml, prank, probcons, python3-mysqldb, python3-matplotlib, python3-mmtf, python3-pil, python3-rdflib, python3-psycopg2, python3-scipy, raxml, samtools, t-coffee, wise Breaks: ncbi-acc-download (<< 0.2.7-2~) Description: Python3 library for bioinformatics Homepage: https://biopython.org Description-md5: b0edcac4d61d56d664f586a477d26535 Section: python Priority: optional Filename: pool/main/p/python-biopython/python3-biopython_1.84+dfsg-4+b2_amd64.deb Size: 1650956 MD5sum: 04adb01fbd95531ad4d92b009ad1fdc0 SHA256: f8450f83412979f45244ef0012e95507e1cb8d295812a9ae85fdeb6944f1fd9f [sid] Package: python3-biopython Source: python-biopython Version: 1.85+dfsg-2 Installed-Size: 12318 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-numpy2-abi0 | python3-numpy-abi9, python3 (<< 3.14), python3 (>= 3.12~), python3-numpy, python3:any, libc6 (>= 2.14), python3-reportlab (>= 4.0.4-1~), w3c-sgml-lib Recommends: python-biopython-doc (= 1.85+dfsg-2), ncbi-blast+ Suggests: python3-tk, bwa, clustalo, clustalw, dialign, dssp, emboss, fasttree, mafft, muscle3, phylip, phyml, prank, probcons, python3-mysqldb, python3-matplotlib, python3-mmtf, python3-pil, python3-rdflib, python3-psycopg2, python3-scipy, python3-igraph, raxml, samtools, t-coffee, wise Breaks: ncbi-acc-download (<< 0.2.7-2~) Description: Python3 library for bioinformatics Homepage: https://biopython.org Description-md5: b0edcac4d61d56d664f586a477d26535 Section: python Priority: optional Filename: pool/main/p/python-biopython/python3-biopython_1.85+dfsg-2_amd64.deb Size: 1674164 MD5sum: daf7041e1b9d34e78d23492dae349833 SHA256: ecb91f164861fd7cc6843de93f3f819012e2ba40290612a300ff8b7be23f916c 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 python3-biopython=1.85+dfsg-2 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 python3-biopython=1.85+dfsg-2 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/tmpiyf9scem 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/trixie-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpiyf9scem 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', '--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/tmpiyf9scem', '--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/tmpiyf9scem/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/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/tmpiyf9scem/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/tmpiyf9scem/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/shm'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/shm'] 0m0.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m0.2s DEBUG: Created policy-rc.d and chmodded it. 0m0.2s DEBUG: Created resolv.conf. 0m0.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpiyf9scem/tmp/scripts/ 0m0.2s INFO: Running scripts post_chroot_unpack 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', 'update'] 0m1.5s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [175 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9418 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6315 kB] Fetched 15.9 MB in 1s (20.1 MB/s) Reading package lists... 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', 'update'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-yf', 'dist-upgrade'] 0m3.1s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: apt bsdutils dash dpkg libapt-pkg6.0t64 libblkid1 liblz4-1 libmount1 libpam-modules libpam-modules-bin libpam-runtime libpam0g libselinux1 libsemanage-common libsemanage2 libsmartcols1 libuuid1 libxxhash0 login mount util-linux 21 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 7100 kB of archives. After this operation, 334 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 bsdutils amd64 1:2.40.4-2 [106 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 dash amd64 0.5.12-12 [98.5 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libxxhash0 amd64 0.8.3-2 [27.1 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 liblz4-1 amd64 1.10.0-3 [63.8 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libapt-pkg6.0t64 amd64 2.9.26 [1115 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 dpkg amd64 1.22.14 [1537 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libuuid1 amd64 2.40.4-2 [36.3 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libblkid1 amd64 2.40.4-2 [169 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libmount1 amd64 2.40.4-2 [199 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 libsmartcols1 amd64 2.40.4-2 [140 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 util-linux amd64 2.40.4-2 [1213 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 mount amd64 2.40.4-2 [155 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 libselinux1 amd64 3.7-3.1 [76.8 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 apt amd64 2.9.26 [1433 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 libpam0g amd64 1.7.0-2 [69.8 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 libpam-modules-bin amd64 1.7.0-2 [48.8 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libpam-modules amd64 1.7.0-2 [177 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libpam-runtime all 1.7.0-2 [248 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 login amd64 1:4.16.0-2+really2.40.4-2 [88.4 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libsemanage-common all 3.7-2.1 [7208 B] Get:21 http://deb.debian.org/debian trixie/main amd64 libsemanage2 amd64 3.7-2.1 [91.2 kB] Preconfiguring packages ... Fetched 7100 kB in 0s (146 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 ... 5029 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.40.4-2_amd64.deb ... Unpacking bsdutils (1:2.40.4-2) over (1:2.40.4-1) ... Setting up bsdutils (1:2.40.4-2) ... (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 ... 5029 files and directories currently installed.) Preparing to unpack .../dash_0.5.12-12_amd64.deb ... Unpacking dash (0.5.12-12) over (0.5.12-11) ... Setting up dash (0.5.12-12) ... (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 ... 5028 files and directories currently installed.) Preparing to unpack .../liblz4-1_1.10.0-3_amd64.deb ... Unpacking liblz4-1:amd64 (1.10.0-3) over (1.9.4-4) ... Setting up liblz4-1:amd64 (1.10.0-3) ... (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 ... 5028 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0t64_2.9.26_amd64.deb ... Unpacking libapt-pkg6.0t64:amd64 (2.9.26) over (2.9.23) ... Setting up libapt-pkg6.0t64:amd64 (2.9.26) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5028 files and directories currently installed.) Preparing to unpack .../dpkg_1.22.14_amd64.deb ... Unpacking dpkg (1.22.14) over (1.22.11) ... Setting up dpkg (1.22.14) ... (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 ... 5027 files and directories currently installed.) Preparing to unpack .../libuuid1_2.40.4-2_amd64.deb ... Unpacking libuuid1:amd64 (2.40.4-2) over (2.40.4-1) ... Setting up libuuid1:amd64 (2.40.4-2) ... (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 ... 5027 files and directories currently installed.) Preparing to unpack .../libblkid1_2.40.4-2_amd64.deb ... Unpacking libblkid1:amd64 (2.40.4-2) over (2.40.4-1) ... Setting up libblkid1:amd64 (2.40.4-2) ... (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 ... 5027 files and directories currently installed.) Preparing to unpack .../libmount1_2.40.4-2_amd64.deb ... Unpacking libmount1:amd64 (2.40.4-2) over (2.40.4-1) ... Setting up libmount1:amd64 (2.40.4-2) ... (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 ... 5027 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.4-2_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.4-2) over (2.40.4-1) ... Setting up libsmartcols1:amd64 (2.40.4-2) ... (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 ... 5027 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.4-2_amd64.deb ... Unpacking util-linux (2.40.4-2) over (2.40.4-1) ... Setting up util-linux (2.40.4-2) ... (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 ... 5027 files and directories currently installed.) Preparing to unpack .../mount_2.40.4-2_amd64.deb ... Unpacking mount (2.40.4-2) over (2.40.4-1) ... Preparing to unpack .../libselinux1_3.7-3.1_amd64.deb ... Unpacking libselinux1:amd64 (3.7-3.1) over (3.7-3+b1) ... Setting up libselinux1:amd64 (3.7-3.1) ... (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 ... 5026 files and directories currently installed.) Preparing to unpack .../archives/apt_2.9.26_amd64.deb ... Unpacking apt (2.9.26) over (2.9.23) ... Setting up apt (2.9.26) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5026 files and directories currently installed.) Preparing to unpack .../libpam0g_1.7.0-2_amd64.deb ... Unpacking libpam0g:amd64 (1.7.0-2) over (1.5.3-7+b1) ... Setting up libpam0g:amd64 (1.7.0-2) ... (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 ... 5025 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.7.0-2_amd64.deb ... Unpacking libpam-modules-bin (1.7.0-2) over (1.5.3-7+b1) ... Setting up libpam-modules-bin (1.7.0-2) ... (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 ... 5016 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.7.0-2_amd64.deb ... Unpacking libpam-modules:amd64 (1.7.0-2) over (1.5.3-7+b1) ... Setting up libpam-modules:amd64 (1.7.0-2) ... Installing new version of config file /etc/security/access.conf ... Installing new version of config file /etc/security/namespace.init ... Installing new version of config file /etc/security/pwhistory.conf ... (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 ... 4964 files and directories currently installed.) Preparing to unpack .../libpam-runtime_1.7.0-2_all.deb ... Unpacking libpam-runtime (1.7.0-2) over (1.5.3-7) ... Setting up libpam-runtime (1.7.0-2) ... (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 ... 5025 files and directories currently installed.) Preparing to unpack .../login_1%3a4.16.0-2+really2.40.4-2_amd64.deb ... Unpacking login (1:4.16.0-2+really2.40.4-2) over (1:4.16.0-2+really2.40.4-1) ... Preparing to unpack .../libsemanage-common_3.7-2.1_all.deb ... Unpacking libsemanage-common (3.7-2.1) over (3.7-2) ... Preparing to unpack .../libsemanage2_3.7-2.1_amd64.deb ... Unpacking libsemanage2:amd64 (3.7-2.1) over (3.7-2+b1) ... Setting up libsemanage-common (3.7-2.1) ... Setting up mount (2.40.4-2) ... Setting up libsemanage2:amd64 (3.7-2.1) ... Setting up login (1:4.16.0-2+really2.40.4-2) ... Processing triggers for debianutils (5.21) ... Processing triggers for libc-bin (2.40-6) ... 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-yf', 'dist-upgrade'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.7s DUMP: 61fcd4276162a3aacb2a7a941a2a67e8 - 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.7s INFO: Running scripts post_setup 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_dummy_users'] 0m4.1s 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 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_dummy_users'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_forbid_home'] 0m4.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_forbid_home'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.1s 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' 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_minimize'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_minimize'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_zz_backports'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_setup_zz_backports'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.1s DUMP: install ok installed apt apt 2.9.26 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.6 install ok installed bash bash 5.2.37-1 install ok installed bsdutils bsdutils 1:2.40.4-2 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-12 install ok installed debconf debconf 1.5.89 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.21 install ok installed diffutils diffutils 1:3.10-2 install ok installed dpkg dpkg 1.22.14 install ok installed e2fsprogs e2fsprogs 1.47.2-1 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-12 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.13-1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.68 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.26 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+b1 install ok installed libblkid1:amd64 libblkid1 2.40.4-2 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 2.40-6 install ok installed libc6:amd64 libc6 2.40-6 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 1.47.2-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.38-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.277 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-12 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-3 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 2.40.4-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-2 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-2 install ok installed libpam-runtime libpam-runtime 1.7.0-2 install ok installed libpam0g:amd64 libpam0g 1.7.0-2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.44-5 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.7-3.1 install ok installed libsemanage-common libsemanage-common 3.7-2.1 install ok installed libsemanage2:amd64 libsemanage2 3.7-2.1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.4-2 install ok installed libss2:amd64 libss2 1.47.2-1 install ok installed libssl3t64:amd64 libssl3t64 3.4.0-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-12 install ok installed libsystemd0:amd64 libsystemd0 257.2-3 install ok installed libtinfo6:amd64 libtinfo6 6.5-2+b1 install ok installed libudev1:amd64 libudev1 257.2-3 install ok installed libuuid1:amd64 libuuid1 2.40.4-2 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-2 install ok installed login login 1:4.16.0-2+really2.40.4-2 install ok installed login.defs login.defs 1:4.16.0-7 install ok installed logsave logsave 1.47.2-1 install ok installed mawk mawk 1.3.4.20240905-1 install ok installed mount mount 2.40.4-2 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 3.4.0-2 install ok installed passwd passwd 1:4.16.0-7 install ok installed perl-base perl-base 5.40.0-8 install ok installed sed sed 4.9-2 install ok installed sqv sqv 1.2.1-5 install ok installed sysvinit-utils sysvinit-utils 3.13-1 install ok installed tar tar 1.35+dfsg-3.1 install ok installed tzdata tzdata 2024b-6 install ok installed usr-is-merged usr-is-merged 39+nmu2 install ok installed util-linux util-linux 2.40.4-2 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.1s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m4.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m4.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m4.3s INFO: Running scripts is_testable 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/is_testable_uninstallable'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/is_testable_uninstallable'] 0m4.3s INFO: Running scripts pre_test 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_test_exceptions'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_test_exceptions'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_test_root_password'] 0m4.4s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_test_root_password'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'show', '--no-all-versions', 'python3-biopython'] 0m4.5s DUMP: Package: python3-biopython Source: python-biopython (1.84+dfsg-4) Version: 1.84+dfsg-4+b2 Installed-Size: 12153 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-numpy (>= 1:1.25.0), python3-numpy-abi9, python3 (<< 3.14), python3 (>= 3.12~), python3:any, libc6 (>= 2.14), python3-reportlab (>= 4.0.4-1~), w3c-sgml-lib Recommends: python-biopython-doc (= 1.84+dfsg-4), ncbi-blast+ Suggests: python3-tk, bwa, clustalo, clustalw, dialign, dssp, emboss, fasttree, mafft, muscle3, phylip, phyml, prank, probcons, python3-mysqldb, python3-matplotlib, python3-mmtf, python3-pil, python3-rdflib, python3-psycopg2, python3-scipy, raxml, samtools, t-coffee, wise Breaks: ncbi-acc-download (<< 0.2.7-2~) Description-en: Python3 library for bioinformatics The Biopython Project is an international association of developers of freely available Python tools for computational molecular biology. . It is a distributed collaborative effort to develop Python3 libraries and applications which address the needs of current and future work in bioinformatics. The source code is made available under the Biopython License, which is extremely liberal and compatible with almost every license in the world. The project works along with the Open Bioinformatics Foundation, who generously provide web and CVS space for the project. Description-md5: b0edcac4d61d56d664f586a477d26535 Homepage: https://biopython.org Section: python Priority: optional Filename: pool/main/p/python-biopython/python3-biopython_1.84+dfsg-4+b2_amd64.deb Size: 1650956 MD5sum: 04adb01fbd95531ad4d92b009ad1fdc0 SHA256: f8450f83412979f45244ef0012e95507e1cb8d295812a9ae85fdeb6944f1fd9f 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'show', '--no-all-versions', 'python3-biopython'] 0m4.5s INFO: apt-cache knows about the following packages: python3-biopython 0m4.5s INFO: Running scripts pre_install 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_database-server'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_database-server'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_exceptions'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_exceptions'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_extras'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_extras'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy'] 0m4.5s 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: 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy', 'python3-biopython'] 0m4.5s DUMP: python3-biopython: Installed: (none) Candidate: 1.84+dfsg-4+b2 Version table: 1.84+dfsg-4+b2 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy', 'python3-biopython'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-y', 'install', 'python3-biopython'] 0m27.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 libatomic1 libblas3 libbrotli1 libcairo2 libdeflate0 libexpat1 libffi8 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 liblerc4 libncursesw6 libopenjp2-7 libpixman-1-0 libpng16-16t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libraqm0 libreadline8t64 libsharpyuv0 libsqlite3-0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxrender1 media-types netbase python3 python3-cairo python3-chardet python3-freetype python3-minimal python3-numpy python3-pil python3-reportlab python3-rlpycairo python3.13 python3.13-minimal readline-common sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core Suggested packages: fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre low-memory-monitor liblcms2-utils python3-doc python3-tk python3-venv bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise gcc gfortran python-numpy-doc python3-dev python3-pytest python-pil-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm python3.13-venv python3.13-doc binutils binfmt-support readline-doc sgml-base-doc debhelper Recommended packages: libglib2.0-data shared-mime-info xdg-user-dirs libgpm2 python-biopython-doc ncbi-blast+ python3-olefile fonts-dejavu-extra ca-certificates The following NEW packages will be installed: fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 libatomic1 libblas3 libbrotli1 libcairo2 libdeflate0 libexpat1 libffi8 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 liblerc4 libncursesw6 libopenjp2-7 libpixman-1-0 libpng16-16t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libraqm0 libreadline8t64 libsharpyuv0 libsqlite3-0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxrender1 media-types netbase python3 python3-biopython python3-cairo python3-chardet python3-freetype python3-minimal python3-numpy python3-pil python3-reportlab python3-rlpycairo python3.13 python3.13-minimal readline-common sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 71 newly installed, 0 to remove and 0 not upgraded. Need to get 40.7 MB of archives. After this operation, 144 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 libpython3.13-minimal amd64 3.13.1-3+b1 [859 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 python3.13-minimal amd64 3.13.1-3+b1 [2203 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.13.1-2 [27.0 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.6-1 [23.6 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libncursesw6 amd64 6.5-2+b1 [136 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-6 [69.4 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-6 [169 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libsqlite3-0 amd64 3.46.1-1 [913 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 libpython3.13-stdlib amd64 3.13.1-3+b1 [1973 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 python3.13 amd64 3.13.1-3+b1 [740 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.13.1-2 [9952 B] Get:15 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.13.1-2 [28.0 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 sgml-base all 1.31 [15.4 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libfontenc1 amd64 1:1.1.8-1+b2 [23.3 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-3 [280 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+24 [217 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 xfonts-utils amd64 1:7.7+7 [93.3 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get:27 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-2 [317 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-12 [9300 B] Get:29 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.1-2 [160 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-2 [391 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b4 [27.8 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.23-1+b1 [47.5 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-12 [836 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.4-2 [1502 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-12 [137 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.2.0-1 [479 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libimagequant0 amd64 2.18.0-1+b2 [35.2 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.1-2 [2452 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libopenjp2-7 amd64 2.5.0-2+b4 [199 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libraqm0 amd64 0.10.2-1 [13.9 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [113 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libwebpmux3 amd64 1.5.0-0.1 [126 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 python3-numpy amd64 1:1.26.4+ds-13 [4736 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get:64 http://deb.debian.org/debian trixie/main amd64 python3-pil amd64 10.4.0-1.1 [522 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 python3-cairo amd64 1.26.1-2+b1 [130 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 python3-freetype all 2.5.1-1 [89.3 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 python3-rlpycairo all 0.3.0-3 [9904 B] Get:68 http://deb.debian.org/debian trixie/main amd64 python3-reportlab all 4.2.5-1 [1117 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 xml-core all 0.19 [20.1 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 python3-biopython amd64 1.84+dfsg-4+b2 [1651 kB] Preconfiguring packages ... 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Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libfontenc1:amd64 (1:1.1.8-1+b2) ... Setting up libblas3:amd64 (3.12.1-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.16-1) ... Setting up libimagequant0:amd64 (2.18.0-1+b2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.44-3) ... Setting up libatomic1:amd64 (14.2.0-12) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libncursesw6:amd64 (6.5-2+b1) ... Setting up libgfortran5:amd64 (14.2.0-12) ... Setting up libwebp7:amd64 (1.5.0-0.1) ... Setting up libffi8:amd64 (3.4.6-1) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libopenjp2-7:amd64 (2.5.0-2+b4) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up netbase (6.4) ... Setting up sgml-base (1.31) ... Setting up libwebpmux3:amd64 (1.5.0-0.1) ... Setting up readline-common (8.2-6) ... Setting up liblapack3:amd64 (3.12.1-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxrender1:amd64 (1:0.9.10-1.1+b4) ... Setting up fontconfig-config (2.15.0-2) ... Setting up libwebpdemux2:amd64 (1.5.0-0.1) ... Setting up libxext6:amd64 (2:1.3.4-1+b3) ... Setting up libglib2.0-0t64:amd64 (2.82.4-2) ... No schema files found: doing nothing. Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libreadline8t64:amd64 (8.2-6) ... Setting up xml-core (0.19) ... Setting up libharfbuzz0b:amd64 (10.2.0-1) ... Setting up libfontconfig1:amd64 (2.15.0-2) ... Setting up libpython3.13-stdlib:amd64 (3.13.1-3+b1) ... Setting up libpython3-stdlib:amd64 (3.13.1-2) ... Setting up python3.13 (3.13.1-3+b1) ... Setting up python3 (3.13.1-2) ... Setting up python3-freetype (2.5.1-1) ... Setting up xfonts-utils (1:7.7+7) ... Setting up libcairo2:amd64 (1.18.2-2) ... Setting up python3-chardet (5.2.0+dfsg-2) ... Setting up libraqm0:amd64 (0.10.2-1) ... Setting up python3-numpy (1:1.26.4+ds-13) ... Setting up python3-cairo (1.26.1-2+b1) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up python3-pil:amd64 (10.4.0-1.1) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up python3-reportlab (4.2.5-1) ... Processing triggers for libc-bin (2.40-6) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.84+dfsg-4+b2) ... 0m27.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-y', 'install', 'python3-biopython'] 0m27.9s INFO: Running scripts post_install 0m27.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_install_exceptions'] 0m27.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_install_exceptions'] 0m27.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m28.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m28.3s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpiyf9scem to sid 0m28.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m28.3s INFO: Running scripts pre_distupgrade 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_exceptions'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_exceptions'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m28.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m28.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', 'update'] 0m30.3s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [205 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 [7346 kB] Fetched 17.6 MB in 2s (11.4 MB/s) Reading package lists... 0m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', 'update'] 0m30.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-yf', 'dist-upgrade'] 0m36.2s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: python3-numpy-dev The following packages will be upgraded: apt bsdutils dpkg gcc-14-base libapt-pkg6.0t64 libatomic1 libblkid1 libgcc-s1 libgfortran5 libglib2.0-0t64 libgomp1 libmount1 libncursesw6 libopenjp2-7 libpcre2-8-0 libpng16-16t64 libpython3.13-minimal libpython3.13-stdlib libselinux1 libsepol2 libsmartcols1 libstdc++6 libtinfo6 libuuid1 login mawk media-types mount ncurses-base ncurses-bin python3-biopython python3-numpy python3-pil python3.13 python3.13-minimal sqv tzdata util-linux 38 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 28.6 MB of archives. After this operation, 8015 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.40.4-3 [106 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-16 [9296 B] Get:3 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-16 [137 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-16 [836 kB] Get:5 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-16 [48.9 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-16 [72.8 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-16 [713 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0t64 amd64 2.9.27 [1120 kB] Get:9 http://deb.debian.org/debian sid/main amd64 dpkg amd64 1.22.15 [1537 kB] Get:10 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.5+20250125-2 [438 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.40.4-3 [36.3 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.40.4-3 [169 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.40.4-3 [200 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.40.4-3 [140 kB] Get:15 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.40.4-3 [1214 kB] Get:16 http://deb.debian.org/debian sid/main amd64 mount amd64 2.40.4-3 [155 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.45-1 [298 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.8-1 [84.3 kB] Get:19 http://deb.debian.org/debian sid/main amd64 sqv amd64 1.2.1-6 [623 kB] Get:20 http://deb.debian.org/debian sid/main amd64 apt amd64 2.9.27 [1440 kB] Get:21 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.5+20250125-2 [273 kB] Get:22 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.40.4-3 [88.5 kB] Get:23 http://deb.debian.org/debian sid/main amd64 python3.13 amd64 3.13.2-1 [745 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libpython3.13-stdlib amd64 3.13.2-1 [1979 kB] Get:25 http://deb.debian.org/debian sid/main amd64 python3.13-minimal amd64 3.13.2-1 [2205 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libpython3.13-minimal amd64 3.13.2-1 [859 kB] Get:27 http://deb.debian.org/debian sid/main amd64 media-types all 11.0.0 [27.6 kB] Get:28 http://deb.debian.org/debian sid/main amd64 tzdata all 2025a-2 [259 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.5+20250125-2 [135 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.5+20250125-2 [348 kB] Get:31 http://deb.debian.org/debian sid/main amd64 mawk amd64 1.3.4.20250131-1 [141 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.83.3-2 [1511 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libopenjp2-7 amd64 2.5.3-1 [204 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libpng16-16t64 amd64 1.6.46-4 [284 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libsepol2 amd64 3.8-1 [296 kB] Get:36 http://deb.debian.org/debian sid/main amd64 python3-biopython amd64 1.85+dfsg-2 [1674 kB] Get:37 http://deb.debian.org/debian sid/main amd64 python3-numpy amd64 1:2.2.2+ds-2 [7507 kB] Get:38 http://deb.debian.org/debian sid/main amd64 python3-numpy-dev amd64 1:2.2.2+ds-2 [138 kB] Get:39 http://deb.debian.org/debian sid/main amd64 python3-pil amd64 11.1.0-5 [531 kB] Preconfiguring packages ... Fetched 28.6 MB in 0s (116 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 ... 9648 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.40.4-3_amd64.deb ... Unpacking bsdutils (1:2.40.4-3) over (1:2.40.4-2) ... Setting up bsdutils (1:2.40.4-3) ... (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 ... 9647 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.5+20250125-2_all.deb ... Unpacking ncurses-base (6.5+20250125-2) over (6.5-2) ... Setting up ncurses-base (6.5+20250125-2) ... (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 ... 9647 files and directories currently installed.) Preparing to unpack .../0-login_1%3a4.16.0-2+really2.40.4-3_amd64.deb ... Unpacking login (1:4.16.0-2+really2.40.4-3) over (1:4.16.0-2+really2.40.4-2) ... Preparing to unpack .../1-python3.13_3.13.2-1_amd64.deb ... Unpacking python3.13 (3.13.2-1) over (3.13.1-3+b1) ... Preparing to unpack .../2-libpython3.13-stdlib_3.13.2-1_amd64.deb ... 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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 ... 9643 files and directories currently installed.) Preparing to unpack .../0-mawk_1.3.4.20250131-1_amd64.deb ... Unpacking mawk (1.3.4.20250131-1) over (1.3.4.20240905-1) ... Preparing to unpack .../1-libglib2.0-0t64_2.83.3-2_amd64.deb ... Unpacking libglib2.0-0t64:amd64 (2.83.3-2) over (2.82.4-2) ... Preparing to unpack .../2-libopenjp2-7_2.5.3-1_amd64.deb ... Unpacking libopenjp2-7:amd64 (2.5.3-1) over (2.5.0-2+b4) ... 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Current default time zone: 'Etc/UTC' Local time is now: Thu Feb 6 21:34:20 UTC 2025. Universal Time is now: Thu Feb 6 21:34:20 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libpython3.13-minimal:amd64 (3.13.2-1) ... Setting up libpng16-16t64:amd64 (1.6.46-4) ... Setting up python3-numpy-dev:amd64 (1:2.2.2+ds-2) ... Setting up libatomic1:amd64 (14.2.0-16) ... Setting up libsepol2:amd64 (3.8-1) ... Setting up libncursesw6:amd64 (6.5+20250125-2) ... Setting up python3-numpy (1:2.2.2+ds-2) ... Setting up libgfortran5:amd64 (14.2.0-16) ... Setting up mount (2.40.4-3) ... Setting up libopenjp2-7:amd64 (2.5.3-1) ... Setting up python3.13-minimal (3.13.2-1) ... Setting up mawk (1.3.4.20250131-1) ... Setting up python3-biopython (1.85+dfsg-2) ... Setting up libpython3.13-stdlib:amd64 (3.13.2-1) ... Setting up login (1:4.16.0-2+really2.40.4-3) ... Setting up python3.13 (3.13.2-1) ... Setting up python3-pil:amd64 (11.1.0-5) ... Setting up libglib2.0-0t64:amd64 (2.83.3-2) ... No schema files found: doing nothing. Processing triggers for libc-bin (2.40-6) ... 0m36.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-yf', 'dist-upgrade'] 0m36.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m36.8s DUMP: 16ee04b16bbf80ffddfb15f4ec2a3e53 - 0m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'show', '--no-all-versions', 'python3-biopython'] 0m36.9s DUMP: Package: python3-biopython Source: python-biopython Version: 1.85+dfsg-2 Installed-Size: 12318 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-numpy2-abi0 | python3-numpy-abi9, python3 (<< 3.14), python3 (>= 3.12~), python3-numpy, python3:any, libc6 (>= 2.14), python3-reportlab (>= 4.0.4-1~), w3c-sgml-lib Recommends: python-biopython-doc (= 1.85+dfsg-2), ncbi-blast+ Suggests: python3-tk, bwa, clustalo, clustalw, dialign, dssp, emboss, fasttree, mafft, muscle3, phylip, phyml, prank, probcons, python3-mysqldb, python3-matplotlib, python3-mmtf, python3-pil, python3-rdflib, python3-psycopg2, python3-scipy, python3-igraph, raxml, samtools, t-coffee, wise Breaks: ncbi-acc-download (<< 0.2.7-2~) Description-en: Python3 library for bioinformatics The Biopython Project is an international association of developers of freely available Python tools for computational molecular biology. . It is a distributed collaborative effort to develop Python3 libraries and applications which address the needs of current and future work in bioinformatics. The source code is made available under the Biopython License, which is extremely liberal and compatible with almost every license in the world. The project works along with the Open Bioinformatics Foundation, who generously provide web and CVS space for the project. Description-md5: b0edcac4d61d56d664f586a477d26535 Homepage: https://biopython.org Section: python Priority: optional Filename: pool/main/p/python-biopython/python3-biopython_1.85+dfsg-2_amd64.deb Size: 1674164 MD5sum: daf7041e1b9d34e78d23492dae349833 SHA256: ecb91f164861fd7cc6843de93f3f819012e2ba40290612a300ff8b7be23f916c 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'show', '--no-all-versions', 'python3-biopython'] 0m36.9s INFO: apt-cache knows about the following packages: python3-biopython 0m36.9s INFO: Running scripts pre_install 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_database-server'] 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_database-server'] 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_exceptions'] 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_exceptions'] 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_extras'] 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_extras'] 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture'] 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture'] 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy'] 0m37.0s 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: 0m37.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy'] 0m37.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy', 'python3-biopython'] 0m37.0s DUMP: python3-biopython: Installed: 1.85+dfsg-2 Candidate: 1.85+dfsg-2 Version table: *** 1.85+dfsg-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m37.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy', 'python3-biopython'] 0m37.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-y', 'install', 'python3-biopython'] 0m37.2s DUMP: Reading package lists... Building dependency tree... Reading state information... python3-biopython is already the newest version (1.85+dfsg-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m37.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-y', 'install', 'python3-biopython'] 0m37.2s INFO: Running scripts post_install 0m37.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_install_exceptions'] 0m37.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_install_exceptions'] 0m37.2s INFO: Running scripts post_distupgrade 0m37.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_exceptions'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_exceptions'] 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m37.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_zz_backports'] 0m37.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_distupgrade_zz_backports'] 0m37.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m37.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m37.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m38.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m38.0s INFO: Running scripts pre_install 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_database-server'] 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_database-server'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_exceptions'] 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_exceptions'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_extras'] 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_extras'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture'] 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy'] 0m38.0s 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: 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy', 'python3-biopython'] 0m38.0s DUMP: python3-biopython: Installed: 1.85+dfsg-2 Candidate: 1.85+dfsg-2 Version table: *** 1.85+dfsg-2 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-cache', 'policy', 'python3-biopython'] 0m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-y', 'install', 'python3-biopython=1.85+dfsg-2'] 0m38.3s DUMP: Reading package lists... Building dependency tree... Reading state information... python3-biopython is already the newest version (1.85+dfsg-2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m38.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', '-y', 'install', 'python3-biopython=1.85+dfsg-2'] 0m38.3s INFO: Running scripts post_install 0m38.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_install_exceptions'] 0m38.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_install_exceptions'] 0m38.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m38.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m39.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', '-ac', '--ignore-obsolete'] 0m39.6s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', '-ac', '--ignore-obsolete'] 0m39.6s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m39.6s DUMP: 0.15.6 0m39.6s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m39.6s INFO: Running adequate version 0.15.6 now. 0m39.6s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'python3-biopython'] 0m39.7s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'python3-biopython'] 0m39.7s INFO: Running scripts pre_remove 0m39.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m39.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m39.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m39.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m39.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m40.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m40.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m40.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m40.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m40.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m40.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_exceptions'] 0m40.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/pre_remove_exceptions'] 0m40.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m40.4s DUMP: install ok installed apt apt 2.9.27 install ok installed base-files base-files 13.6 install ok installed base-passwd base-passwd 3.6.6 install ok installed bash bash 5.2.37-1 install ok installed bsdutils bsdutils 1:2.40.4-3 install ok installed coreutils coreutils 9.5-1+b1 install ok installed dash dash 0.5.12-12 install ok installed debconf debconf 1.5.89 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.21 install ok installed diffutils diffutils 1:3.10-2 install ok installed dpkg dpkg 1.22.15 install ok installed e2fsprogs e2fsprogs 1.47.2-1 install ok installed findutils findutils 4.10.0-3 install ok installed fontconfig-config fontconfig-config 2.15.0-2 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-8 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-8 install ok installed fonts-urw-base35 fonts-urw-base35 20200910-8 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-16 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.13-1 install ok installed hostname hostname 3.25 install ok installed init-system-helpers init-system-helpers 1.68 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.27 install ok installed libatomic1:amd64 libatomic1 14.2.0-16 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+b1 install ok installed libblas3:amd64 libblas3 3.12.1-2 install ok installed libblkid1:amd64 libblkid1 2.40.4-3 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b6 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 2.40-6 install ok installed libc6:amd64 libc6 2.40-6 install ok installed libcairo2:amd64 libcairo2 1.18.2-2 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 1.47.2-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.38-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.277 install ok installed libdeflate0:amd64 libdeflate0 1.23-1+b1 install ok installed libexpat1:amd64 libexpat1 2.6.4-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.2-1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-2 install ok installed libfontenc1:amd64 libfontenc1 1:1.1.8-1+b2 install ok installed libfreetype6:amd64 libfreetype6 2.13.3+dfsg-1 install ok installed libfribidi0:amd64 libfribidi0 1.0.16-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-16 install ok installed libgfortran5:amd64 libgfortran5 14.2.0-16 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.83.3-2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-3 install ok installed libgomp1:amd64 libgomp1 14.2.0-16 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2+b1 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 10.2.0-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1+b1 install ok installed libimagequant0:amd64 libimagequant0 2.18.0-1+b2 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3+b1 install ok installed liblapack3:amd64 liblapack3 3.12.1-2 install ok installed liblcms2-2:amd64 liblcms2-2 2.16-2 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-5 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-3 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 2.40.4-3 install ok installed libncursesw6:amd64 libncursesw6 6.5+20250125-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1+b1 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.3-1 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-2 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-2 install ok installed libpam-runtime libpam-runtime 1.7.0-2 install ok installed libpam0g:amd64 libpam0g 1.7.0-2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.45-1 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.44.0-3 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.46-4 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.13.1-2 install ok installed libpython3.13-minimal:amd64 libpython3.13-minimal 3.13.2-1 install ok installed libpython3.13-stdlib:amd64 libpython3.13-stdlib 3.13.2-1 install ok installed libraqm0:amd64 libraqm0 0.10.2-1 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-6 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-2 install ok installed libselinux1:amd64 libselinux1 3.8-1 install ok installed libsemanage-common libsemanage-common 3.7-2.1 install ok installed libsemanage2:amd64 libsemanage2 3.7-2.1 install ok installed libsepol2:amd64 libsepol2 3.8-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.5.0-0.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.4-3 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-1 install ok installed libss2:amd64 libss2 1.47.2-1 install ok installed libssl3t64:amd64 libssl3t64 3.4.0-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-16 install ok installed libsystemd0:amd64 libsystemd0 257.2-3 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-5 install ok installed libtinfo6:amd64 libtinfo6 6.5+20250125-2 install ok installed libudev1:amd64 libudev1 257.2-3 install ok installed libuuid1:amd64 libuuid1 2.40.4-3 install ok installed libwebp7:amd64 libwebp7 1.5.0-0.1 install ok installed libwebpdemux2:amd64 libwebpdemux2 1.5.0-0.1 install ok installed libwebpmux3:amd64 libwebpmux3 1.5.0-0.1 install ok installed libx11-6:amd64 libx11-6 2:1.8.10-2 install ok installed libx11-data libx11-data 2:1.8.10-2 install ok installed libxau6:amd64 libxau6 1:1.0.11-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.17.0-2+b1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.17.0-2+b1 install ok installed libxcb1:amd64 libxcb1 1.17.0-2+b1 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.5-1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b3 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1+b4 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-2 install ok installed login login 1:4.16.0-2+really2.40.4-3 install ok installed login.defs login.defs 1:4.16.0-7 install ok installed logsave logsave 1.47.2-1 install ok installed mawk mawk 1.3.4.20250131-1 install ok installed media-types media-types 11.0.0 install ok installed mount mount 2.40.4-3 install ok installed ncurses-base ncurses-base 6.5+20250125-2 install ok installed ncurses-bin ncurses-bin 6.5+20250125-2 install ok installed netbase netbase 6.4 install ok installed openssl-provider-legacy openssl-provider-legacy 3.4.0-2 install ok installed passwd passwd 1:4.16.0-7 install ok installed perl-base perl-base 5.40.0-8 install ok installed python3 python3 3.13.1-2 install ok installed python3-biopython python3-biopython 1.85+dfsg-2 install ok installed python3-cairo python3-cairo 1.26.1-2+b1 install ok installed python3-chardet python3-chardet 5.2.0+dfsg-2 install ok installed python3-freetype python3-freetype 2.5.1-1 install ok installed python3-minimal python3-minimal 3.13.1-2 install ok installed python3-numpy python3-numpy 1:2.2.2+ds-2 install ok installed python3-numpy-dev:amd64 python3-numpy-dev 1:2.2.2+ds-2 install ok installed python3-pil:amd64 python3-pil 11.1.0-5 install ok installed python3-reportlab python3-reportlab 4.2.5-1 install ok installed python3-rlpycairo python3-rlpycairo 0.3.0-3 install ok installed python3.13 python3.13 3.13.2-1 install ok installed python3.13-minimal python3.13-minimal 3.13.2-1 install ok installed readline-common readline-common 8.2-6 install ok installed sed sed 4.9-2 install ok installed sgml-base sgml-base 1.31 install ok installed sqv sqv 1.2.1-6 install ok installed sysvinit-utils sysvinit-utils 3.13-1 install ok installed tar tar 1.35+dfsg-3.1 install ok installed tzdata tzdata 2025a-2 install ok installed usr-is-merged usr-is-merged 39+nmu2 install ok installed util-linux util-linux 2.40.4-3 install ok installed w3c-sgml-lib w3c-sgml-lib 1.3-3 install ok installed x11-common x11-common 1:7.7+24 install ok installed xfonts-encodings xfonts-encodings 1:1.0.4-2.2 install ok installed xfonts-utils xfonts-utils 1:7.7+7 install ok installed xml-core xml-core 0.19 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m40.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m40.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', 'remove', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libopenjp2-7:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libtiff6:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'media-types', 'netbase', 'python3', 'python3-cairo', 'python3-chardet', 'python3-freetype', 'python3-minimal', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-pil:amd64', 'python3-reportlab', 'python3-rlpycairo', 'python3.13', 'python3.13-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'python3-biopython'] 0m58.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 libatomic1 libblas3 libbrotli1 libcairo2 libdeflate0 libexpat1 libffi8 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 liblerc4 libncursesw6 libopenjp2-7 libpixman-1-0 libpng16-16t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libraqm0 libreadline8t64 libsharpyuv0 libsqlite3-0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxrender1 media-types netbase python3 python3-biopython python3-cairo python3-chardet python3-freetype python3-minimal python3-numpy python3-numpy-dev python3-pil python3-reportlab python3-rlpycairo python3.13 python3.13-minimal readline-common sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 0 newly installed, 72 to remove and 0 not upgraded. After this operation, 151 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 ... 9700 files and directories currently installed.) Removing python3-biopython (1.85+dfsg-2) ... Removing python3-reportlab (4.2.5-1) ... Removing python3-rlpycairo (0.3.0-3) ... Removing python3-cairo (1.26.1-2+b1) ... Removing libcairo2:amd64 (1.18.2-2) ... Removing libfontconfig1:amd64 (2.15.0-2) ... Removing fontconfig-config (2.15.0-2) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing fonts-urw-base35 (20200910-8) ... Removing python3-pil:amd64 (11.1.0-5) ... Removing libraqm0:amd64 (0.10.2-1) ... Removing libharfbuzz0b:amd64 (10.2.0-1) ... Removing libglib2.0-0t64:amd64 (2.83.3-2) ... Removing libatomic1:amd64 (14.2.0-16) ... Removing python3-numpy (1:2.2.2+ds-2) ... Removing liblapack3:amd64 (3.12.1-2) ... Removing libblas3:amd64 (3.12.1-2) ... Removing xfonts-utils (1:7.7+7) ... Removing python3-freetype (2.5.1-1) ... Removing libfreetype6:amd64 (2.13.3+dfsg-1) ... Removing libbrotli1:amd64 (1.1.0-2+b6) ... Removing libtiff6:amd64 (4.5.1+git230720-5) ... Removing libdeflate0:amd64 (1.23-1+b1) ... Removing python3-chardet (5.2.0+dfsg-2) ... Removing python3 (3.13.1-2) ... Removing python3.13 (3.13.2-1) ... Removing python3-minimal (3.13.1-2) ... Removing python3.13-minimal (3.13.2-1) ... Removing libexpat1:amd64 (2.6.4-1) ... Removing libpython3-stdlib:amd64 (3.13.1-2) ... Removing libpython3.13-stdlib:amd64 (3.13.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libffi8:amd64 (3.4.6-1) ... Removing libfontenc1:amd64 (1:1.1.8-1+b2) ... Removing libfribidi0:amd64 (1.0.16-1) ... Removing libgfortran5:amd64 (14.2.0-16) ... Removing libimagequant0:amd64 (2.18.0-1+b2) ... Removing libgomp1:amd64 (14.2.0-16) ... Removing libgraphite2-3:amd64 (1.3.14-2+b1) ... Removing libjbig0:amd64 (2.1-6.1+b2) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Removing liblcms2-2:amd64 (2.16-2) ... Removing liblerc4:amd64 (4.0.0+ds-5) ... Removing libncursesw6:amd64 (6.5+20250125-2) ... Removing libopenjp2-7:amd64 (2.5.3-1) ... Removing libpixman-1-0:amd64 (0.44.0-3) ... Removing libpng16-16t64:amd64 (1.6.46-4) ... Removing libpython3.13-minimal:amd64 (3.13.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8t64:amd64 (8.2-6) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing libwebpmux3:amd64 (1.5.0-0.1) ... Removing libwebpdemux2:amd64 (1.5.0-0.1) ... Removing libwebp7:amd64 (1.5.0-0.1) ... Removing libsharpyuv0:amd64 (1.5.0-0.1) ... Removing libsqlite3-0:amd64 (3.46.1-1) ... Removing libxrender1:amd64 (1:0.9.10-1.1+b4) ... Removing libxext6:amd64 (2:1.3.4-1+b3) ... Removing libx11-6:amd64 (2:1.8.10-2) ... Removing libx11-data (2:1.8.10-2) ... Removing libxcb-shm0:amd64 (1.17.0-2+b1) ... Removing libxcb-render0:amd64 (1.17.0-2+b1) ... Removing libxcb1:amd64 (1.17.0-2+b1) ... Removing libxau6:amd64 (1:1.0.11-1) ... Removing libxdmcp6:amd64 (1:1.1.5-1) ... Removing media-types (11.0.0) ... Removing netbase (6.4) ... Removing python3-numpy-dev:amd64 (1:2.2.2+ds-2) ... Removing readline-common (8.2-6) ... Removing w3c-sgml-lib (1.3-3) ... Removing xml-core (0.19) ... Removing sgml-base (1.31) ... Removing xfonts-encodings (1:1.0.4-2.2) ... Removing x11-common (1:7.7+24) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Processing triggers for libc-bin (2.40-6) ... 0m58.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', 'remove', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libopenjp2-7:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libtiff6:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'media-types', 'netbase', 'python3', 'python3-cairo', 'python3-chardet', 'python3-freetype', 'python3-minimal', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-pil:amd64', 'python3-reportlab', 'python3-rlpycairo', 'python3.13', 'python3.13-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'python3-biopython'] 0m58.5s INFO: Running scripts post_remove 0m58.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_remove_exceptions'] 0m58.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_remove_exceptions'] 0m58.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg', '--purge', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libopenjp2-7:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libtiff6:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'media-types', 'netbase', 'python3', 'python3-cairo', 'python3-chardet', 'python3-freetype', 'python3-minimal', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-pil:amd64', 'python3-reportlab', 'python3-rlpycairo', 'python3.13', 'python3.13-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 0m58.7s DUMP: (Reading database ... 5083 files and directories currently installed.) Purging configuration files for fontconfig-config (2.15.0-2) ... dpkg: warning: while removing fontconfig-config, directory '/etc/fonts/conf.d' not empty so not removed Purging configuration files for fonts-dejavu-core (2.37-8) ... Purging configuration files for fonts-dejavu-mono (2.37-8) ... dpkg: warning: while removing fonts-dejavu-mono, directory '/etc/fonts' not empty so not removed Purging configuration files for fonts-urw-base35 (20200910-8) ... dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libffi8 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfontenc1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.83.3-2) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove liblerc4 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libopenjp2-7 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16t64 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.13-minimal:amd64 (3.13.2-1) ... dpkg: warning: ignoring request to remove libpython3.13-stdlib which isn't installed dpkg: warning: ignoring request to remove libraqm0 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-6) ... dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed Purging configuration files for media-types (11.0.0) ... Purging configuration files for netbase (6.4) ... Purging configuration files for python3 (3.13.1-2) ... dpkg: warning: ignoring request to remove python3-cairo which isn't installed dpkg: warning: ignoring request to remove python3-chardet which isn't installed dpkg: warning: ignoring request to remove python3-freetype which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-numpy-dev which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-rlpycairo which isn't installed dpkg: warning: ignoring request to remove python3.13 which isn't installed Purging configuration files for python3.13-minimal (3.13.2-1) ... Purging configuration files for readline-common (8.2-6) ... Purging configuration files for sgml-base (1.31) ... Purging configuration files for w3c-sgml-lib (1.3-3) ... Purging configuration files for x11-common (1:7.7+24) ... dpkg: warning: ignoring request to remove xfonts-encodings which isn't installed Purging configuration files for xfonts-utils (1:7.7+7) ... Purging configuration files for xml-core (0.19) ... 0m58.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg', '--purge', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libopenjp2-7:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libtiff6:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'media-types', 'netbase', 'python3', 'python3-cairo', 'python3-chardet', 'python3-freetype', 'python3-minimal', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-pil:amd64', 'python3-reportlab', 'python3-rlpycairo', 'python3.13', 'python3.13-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 0m58.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg', '--purge', 'python3-biopython'] 0m58.7s DUMP: dpkg: warning: ignoring request to remove python3-biopython which isn't installed 0m58.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg', '--purge', 'python3-biopython'] 0m58.7s INFO: Running scripts post_purge 0m58.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_purge_exceptions'] 0m58.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_purge_exceptions'] 0m58.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg', '--purge', '--pending'] 0m58.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg', '--purge', '--pending'] 0m58.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg', '--remove', '--pending'] 0m58.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg', '--remove', '--pending'] 0m58.7s INFO: Running scripts post_test 0m58.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_test_exceptions'] 0m58.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'tmp/scripts/post_test_exceptions'] 0m58.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m58.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m58.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg-divert', '--list'] 0m58.9s 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 0m58.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'dpkg-divert', '--list'] 0m58.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', 'clean'] 0m59.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpiyf9scem', 'apt-get', 'clean'] 0m59.0s DEBUG: Recording chroot state 0m59.3s INFO: Warning: Package purging left files on system: /etc/fonts/ owned by: fontconfig-config, fonts-urw-base35, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/ owned by: fontconfig-config, fonts-urw-base35, fonts-dejavu-core, fonts-dejavu-mono /etc/fonts/conf.d/70-no-bitmaps-except-emoji.conf -> /usr/share/fontconfig/conf.avail/70-no-bitmaps-except-emoji.conf not owned 0m59.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/shm'] 0m59.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/shm'] 0m59.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/console'] 0m59.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/console'] 0m59.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/ptmx'] 0m59.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/ptmx'] 0m59.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/pts'] 0m59.5s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/dev/pts'] 0m59.5s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/proc'] 0m59.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpiyf9scem/proc'] 0m59.6s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m59.6s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpiyf9scem'] 0m59.6s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpiyf9scem 0m59.6s INFO: PASS: Upgrading between Debian distributions. 0m59.6s INFO: PASS: All tests. 0m59.6s INFO: piuparts run ends. ret=0 End: 2025-02-06 21:34:46 GMT