Start: 2025-09-15 21:09:53 GMT [testing] Package: augur Version: 24.4.0-1 Installed-Size: 1056 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-bcbio-gff, python3-biopython, python3-cvxopt, python3-importlib-resources | python3-supported-min (>= 3.11), python3-isodate, python3-jsonschema, python3-networkx, python3-numpy, python3-packaging, python3-pandas, python3-pyfastx, python3-scipy, python3-treetime (>= 0.9.4), python3-xopen (>= 1.7.0-1~), python3:any, python3-boto3, python3-dendropy, python3-matplotlib, python3-schedule, python3-seaborn, python3-zstandard, seqmagick, python3-ipdb, mafft, raxml, fasttree, vcftools Recommends: iqtree Description: pipeline components for real-time virus analysis Homepage: https://github.com/nextstrain/augur Description-md5: e2aaa44840d7b632d0e95700bc100196 Section: science Priority: optional Filename: pool/main/a/augur/augur_24.4.0-1_all.deb Size: 261232 MD5sum: b572f222840d0090638ca16dde37b5e6 SHA256: 54cf77ceaea54e677ac39643f62ead613bbd628037ce9c203f3d64cfe727f5f0 [sid] Package: augur Version: 24.4.0-3 Installed-Size: 1058 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-bcbio-gff, python3-biopython, python3-cvxopt, python3-importlib-resources | python3-supported-min (>= 3.11), python3-isodate, python3-jsonschema, python3-networkx, python3-numpy, python3-packaging, python3-pandas, python3-pyfastx, python3-scipy, python3-treetime (>= 0.9.4), python3-xopen (>= 1.7.0-1~), python3:any, python3-boto3, python3-dendropy, python3-matplotlib, python3-schedule, python3-seaborn, python3-zstandard, seqmagick, python3-ipdb, mafft, raxml, fasttree, vcftools Recommends: iqtree Description: pipeline components for real-time virus analysis Homepage: https://github.com/nextstrain/augur Description-md5: e2aaa44840d7b632d0e95700bc100196 Section: science Priority: optional Filename: pool/main/a/augur/augur_24.4.0-3_all.deb Size: 261712 MD5sum: 5f0e121db7f92a14fd48ff94d6dc1ffc SHA256: 85a8d958ce86d25eb11d388c5d4b52df7a7b233ef0731e4b71484331bed813d4 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/bin/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/forky-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt augur=24.4.0-3 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.6.1~202508211856~1.6.0-10-gffba2cce starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/bin/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/forky-merged-usr_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt augur=24.4.0-3 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 6.1.0-39-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.148-1 (2025-08-26) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpeokaauip 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/forky-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpeokaauip 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpeokaauip', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/forky-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpeokaauip', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/forky-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpeokaauip/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpeokaauip/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/tmpeokaauip/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/tmpeokaauip/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/shm'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/shm'] 0m0.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ forky 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/tmpeokaauip/tmp/scripts/ 0m0.2s INFO: Running scripts post_chroot_unpack 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', 'update'] 0m1.7s DUMP: Get:1 http://deb.debian.org/debian forky InRelease [146 kB] Get:2 http://deb.debian.org/debian forky/main amd64 Packages [9804 kB] Get:3 http://deb.debian.org/debian forky/main Translation-en [6539 kB] Fetched 16.5 MB in 1s (16.8 MB/s) Reading package lists... 0m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', 'update'] 0m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-yf', 'dist-upgrade'] 0m4.0s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following NEW packages will be installed: gcc-15-base The following packages will be upgraded: apt base-files bash bsdutils gcc-14-base init-system-helpers libapt-pkg7.0 libaudit-common libaudit1 libblkid1 libgcc-s1 libgmp10 liblastlog2-2 liblzma5 libmount1 libpcre2-8-0 libsmartcols1 libsqlite3-0 libssl3t64 libstdc++6 libsystemd0 libudev1 libuuid1 libzstd1 login login.defs mount openssl-provider-legacy passwd tzdata util-linux 31 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 15.3 MB of archives. After this operation, 1659 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian forky/main amd64 base-files amd64 14 [72.9 kB] Get:2 http://deb.debian.org/debian forky/main amd64 bash amd64 5.3-1 [1556 kB] Get:3 http://deb.debian.org/debian forky/main amd64 bsdutils amd64 1:2.41.1-3 [117 kB] Get:4 http://deb.debian.org/debian forky/main amd64 liblastlog2-2 amd64 2.41.1-3 [29.3 kB] Get:5 http://deb.debian.org/debian forky/main amd64 libuuid1 amd64 2.41.1-3 [38.9 kB] Get:6 http://deb.debian.org/debian forky/main amd64 libblkid1 amd64 2.41.1-3 [188 kB] Get:7 http://deb.debian.org/debian forky/main amd64 libmount1 amd64 2.41.1-3 [229 kB] Get:8 http://deb.debian.org/debian forky/main amd64 libsmartcols1 amd64 2.41.1-3 [157 kB] Get:9 http://deb.debian.org/debian forky/main amd64 util-linux amd64 2.41.1-3 [1306 kB] Get:10 http://deb.debian.org/debian forky/main amd64 mount amd64 2.41.1-3 [172 kB] Get:11 http://deb.debian.org/debian forky/main amd64 libsqlite3-0 amd64 3.46.1-8 [968 kB] Get:12 http://deb.debian.org/debian forky/main amd64 gcc-15-base amd64 15.2.0-3 [52.5 kB] Get:13 http://deb.debian.org/debian forky/main amd64 libgcc-s1 amd64 15.2.0-3 [75.4 kB] Get:14 http://deb.debian.org/debian forky/main amd64 liblzma5 amd64 5.8.1-1.1 [316 kB] Get:15 http://deb.debian.org/debian forky/main amd64 openssl-provider-legacy amd64 3.5.2-1 [307 kB] Get:16 http://deb.debian.org/debian forky/main amd64 libzstd1 amd64 1.5.7+dfsg-1.1 [320 kB] Get:17 http://deb.debian.org/debian forky/main amd64 libssl3t64 amd64 3.5.2-1 [2438 kB] Get:18 http://deb.debian.org/debian forky/main amd64 libstdc++6 amd64 15.2.0-3 [737 kB] Get:19 http://deb.debian.org/debian forky/main amd64 libsystemd0 amd64 258~rc4-1 [465 kB] Get:20 http://deb.debian.org/debian forky/main amd64 libudev1 amd64 258~rc4-1 [156 kB] Get:21 http://deb.debian.org/debian forky/main amd64 libapt-pkg7.0 amd64 3.1.5 [1182 kB] Get:22 http://deb.debian.org/debian forky/main amd64 apt amd64 3.1.5 [1479 kB] Get:23 http://deb.debian.org/debian forky/main amd64 init-system-helpers all 1.69 [39.3 kB] Get:24 http://deb.debian.org/debian forky/main amd64 libaudit-common all 1:4.1.1-1 [14.0 kB] Get:25 http://deb.debian.org/debian forky/main amd64 libaudit1 amd64 1:4.1.1-1 [61.6 kB] Get:26 http://deb.debian.org/debian forky/main amd64 login amd64 1:4.16.0-2+really2.41.1-3 [119 kB] Get:27 http://deb.debian.org/debian forky/main amd64 libgmp10 amd64 2:6.3.0+dfsg-5 [574 kB] Get:28 http://deb.debian.org/debian forky/main amd64 libpcre2-8-0 amd64 10.46-1 [298 kB] Get:29 http://deb.debian.org/debian forky/main amd64 login.defs all 1:4.18.0-1 [211 kB] Get:30 http://deb.debian.org/debian forky/main amd64 passwd amd64 1:4.18.0-1 [1284 kB] Get:31 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get:32 http://deb.debian.org/debian forky/main amd64 gcc-14-base amd64 14.3.0-7 [52.0 kB] Preconfiguring packages ... Fetched 15.3 MB in 0s (53.4 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 ... 4934 files and directories currently installed.) Preparing to unpack .../base-files_14_amd64.deb ... Unpacking base-files (14) over (13.8) ... Setting up base-files (14) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... (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 ... 4940 files and directories currently installed.) Preparing to unpack .../libstdc++6_15.2.0-3_amd64.deb ... Unpacking libstdc++6:amd64 (15.2.0-3) over (14.2.0-19) ... Setting up libstdc++6:amd64 (15.2.0-3) ... (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 ... 4940 files and directories currently installed.) Preparing to unpack .../libsystemd0_258~rc4-1_amd64.deb ... Unpacking libsystemd0:amd64 (258~rc4-1) over (257.7-1) ... Setting up libsystemd0:amd64 (258~rc4-1) ... (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 ... 4940 files and directories currently installed.) Preparing to unpack .../libudev1_258~rc4-1_amd64.deb ... Unpacking libudev1:amd64 (258~rc4-1) over (257.7-1) ... Setting up libudev1:amd64 (258~rc4-1) ... (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 ... 4940 files and directories currently installed.) Preparing to unpack .../libapt-pkg7.0_3.1.5_amd64.deb ... Unpacking libapt-pkg7.0:amd64 (3.1.5) over (3.0.3) ... Setting up libapt-pkg7.0:amd64 (3.1.5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4940 files and directories currently installed.) Preparing to unpack .../archives/apt_3.1.5_amd64.deb ... Unpacking apt (3.1.5) over (3.0.3) ... Setting up apt (3.1.5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4938 files and directories currently installed.) Preparing to unpack .../init-system-helpers_1.69_all.deb ... Unpacking init-system-helpers (1.69) over (1.68) ... Setting up init-system-helpers (1.69) ... (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 ... 4939 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a4.1.1-1_all.deb ... Unpacking libaudit-common (1:4.1.1-1) over (1:4.0.2-2) ... Setting up libaudit-common (1:4.1.1-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4939 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a4.1.1-1_amd64.deb ... Unpacking libaudit1:amd64 (1:4.1.1-1) over (1:4.0.2-2+b2) ... Setting up libaudit1:amd64 (1:4.1.1-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4938 files and directories currently installed.) Preparing to unpack .../login_1%3a4.16.0-2+really2.41.1-3_amd64.deb ... Unpacking login (1:4.16.0-2+really2.41.1-3) over (1:4.16.0-2+really2.41-5) ... Preparing to unpack .../libgmp10_2%3a6.3.0+dfsg-5_amd64.deb ... Unpacking libgmp10:amd64 (2:6.3.0+dfsg-5) over (2:6.3.0+dfsg-3) ... Setting up libgmp10:amd64 (2:6.3.0+dfsg-5) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4941 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.46-1_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.46-1) over (10.45-1) ... Setting up libpcre2-8-0:amd64 (10.46-1) ... (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 ... 4941 files and directories currently installed.) Preparing to unpack .../login.defs_1%3a4.18.0-1_all.deb ... Unpacking login.defs (1:4.18.0-1) over (1:4.17.4-2) ... Preparing to unpack .../passwd_1%3a4.18.0-1_amd64.deb ... Unpacking passwd (1:4.18.0-1) over (1:4.17.4-2) ... Preparing to unpack .../tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) over (2025b-4) ... Preparing to unpack .../gcc-14-base_14.3.0-7_amd64.deb ... Unpacking gcc-14-base:amd64 (14.3.0-7) over (14.2.0-19) ... Setting up gcc-14-base:amd64 (14.3.0-7) ... Setting up login.defs (1:4.18.0-1) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Sep 15 21:09:57 UTC 2025. Universal Time is now: Mon Sep 15 21:09:57 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up passwd (1:4.18.0-1) ... Setting up mount (2.41.1-3) ... Setting up login (1:4.16.0-2+really2.41.1-3) ... Processing triggers for debianutils (5.23.2) ... Processing triggers for libc-bin (2.41-12) ... 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-yf', 'dist-upgrade'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.6s DUMP: 1d497cf87849a82bb09f5fda3c719588 - 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.6s INFO: Running scripts post_setup 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_dummy_users'] 0m5.0s 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 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_dummy_users'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_forbid_home'] 0m5.0s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m5.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_forbid_home'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.1s 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' 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_minimize'] 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_minimize'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_zz_backports'] 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_setup_zz_backports'] 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s DUMP: install ok installed apt apt 3.1.5 install ok installed base-files base-files 14 install ok installed base-passwd base-passwd 3.6.7 install ok installed bash bash 5.3-1 install ok installed bsdutils bsdutils 1:2.41.1-3 install ok installed coreutils coreutils 9.7-3 install ok installed dash dash 0.5.12-12 install ok installed debconf debconf 1.5.91 install ok installed debian-archive-keyring debian-archive-keyring 2025.1 install ok installed debianutils debianutils 5.23.2 install ok installed diffutils diffutils 1:3.10-4 install ok installed dpkg dpkg 1.22.21 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-14-base:amd64 gcc-14-base 14.3.0-7 install ok installed gcc-15-base:amd64 gcc-15-base 15.2.0-3 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 1.69 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.1.5 install ok installed libattr1:amd64 libattr1 1:2.5.2-3 install ok installed libaudit-common libaudit-common 1:4.1.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.1.1-1 install ok installed libblkid1:amd64 libblkid1 2.41.1-3 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 2.41-12 install ok installed libc6:amd64 libc6 2.41-12 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4+b1 install ok installed libcap2:amd64 libcap2 1:2.75-10+b1 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 0.280 install ok installed libgcc-s1:amd64 libgcc-s1 15.2.0-3 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.1-1 install ok installed liblastlog2-2:amd64 liblastlog2-2 2.41.1-3 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-4 install ok installed liblzma5:amd64 liblzma5 5.8.1-1.1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.41.1-3 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.1-1 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-5 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-5 install ok installed libpam-runtime libpam-runtime 1.7.0-5 install ok installed libpam0g:amd64 libpam0g 1.7.0-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.46-1 install ok installed libseccomp2:amd64 libseccomp2 2.6.0-2 install ok installed libselinux1:amd64 libselinux1 3.8.1-1 install ok installed libsemanage-common libsemanage-common 3.8.1-1 install ok installed libsemanage2:amd64 libsemanage2 3.8.1-1 install ok installed libsepol2:amd64 libsepol2 3.8.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.41.1-3 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-8 install ok installed libssl3t64:amd64 libssl3t64 3.5.2-1 install ok installed libstdc++6:amd64 libstdc++6 15.2.0-3 install ok installed libsystemd0:amd64 libsystemd0 258~rc4-1 install ok installed libtinfo6:amd64 libtinfo6 6.5+20250216-2 install ok installed libudev1:amd64 libudev1 258~rc4-1 install ok installed libuuid1:amd64 libuuid1 2.41.1-3 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-1.1 install ok installed login login 1:4.16.0-2+really2.41.1-3 install ok installed login.defs login.defs 1:4.18.0-1 install ok installed mawk mawk 1.3.4.20250131-1 install ok installed mount mount 2.41.1-3 install ok installed ncurses-base ncurses-base 6.5+20250216-2 install ok installed ncurses-bin ncurses-bin 6.5+20250216-2 install ok installed openssl-provider-legacy openssl-provider-legacy 3.5.2-1 install ok installed passwd passwd 1:4.18.0-1 install ok installed perl-base perl-base 5.40.1-6 install ok installed sed sed 4.9-2 install ok installed sqv sqv 1.3.0-3 install ok installed sysvinit-utils sysvinit-utils 3.14-4 install ok installed tar tar 1.35+dfsg-3.1 install ok installed tzdata tzdata 2025b-5 install ok installed util-linux util-linux 2.41.1-3 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.1s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m5.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 0m5.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 0m5.3s INFO: Running scripts is_testable 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/is_testable_uninstallable'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/is_testable_uninstallable'] 0m5.3s INFO: Running scripts pre_test 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_test_exceptions'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_test_exceptions'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_test_root_password'] 0m5.4s DUMP: New password: Retype new password: passwd: password updated successfully 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_test_root_password'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'show', '--no-all-versions', 'augur'] 0m5.5s DUMP: Package: augur Version: 24.4.0-1 Installed-Size: 1056 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-bcbio-gff, python3-biopython, python3-cvxopt, python3-importlib-resources | python3-supported-min (>= 3.11), python3-isodate, python3-jsonschema, python3-networkx, python3-numpy, python3-packaging, python3-pandas, python3-pyfastx, python3-scipy, python3-treetime (>= 0.9.4), python3-xopen (>= 1.7.0-1~), python3:any, python3-boto3, python3-dendropy, python3-matplotlib, python3-schedule, python3-seaborn, python3-zstandard, seqmagick, python3-ipdb, mafft, raxml, fasttree, vcftools Recommends: iqtree Description-en: pipeline components for real-time virus analysis The nextstrain project is an attempt to make flexible informatic pipelines and visualization tools to track ongoing pathogen evolution as sequence data emerges. The nextstrain project derives from nextflu, which was specific to influenza evolution. . nextstrain is comprised of three components: . * fauna: database and IO scripts for sequence and serological data * augur: informatic pipelines to conduct inferences from raw data * auspice: web app to visualize resulting inferences Description-md5: e2aaa44840d7b632d0e95700bc100196 Homepage: https://github.com/nextstrain/augur Section: science Priority: optional Filename: pool/main/a/augur/augur_24.4.0-1_all.deb Size: 261232 MD5sum: b572f222840d0090638ca16dde37b5e6 SHA256: 54cf77ceaea54e677ac39643f62ead613bbd628037ce9c203f3d64cfe727f5f0 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'show', '--no-all-versions', 'augur'] 0m5.5s INFO: apt-cache knows about the following packages: augur 0m5.5s INFO: Running scripts pre_install 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_database-server'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_database-server'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_exceptions'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_exceptions'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_extras'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_extras'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy'] 0m5.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian forky/main amd64 Packages release o=Debian,a=testing,n=forky,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy', 'augur'] 0m5.5s DUMP: augur: Installed: (none) Candidate: 24.4.0-1 Version table: 24.4.0-1 500 500 http://deb.debian.org/debian forky/main amd64 Packages 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy', 'augur'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-y', 'install', 'augur'] 0m56.0s DUMP: Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: blt ca-certificates fasttree fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-urw-base35 libabsl20240722 libamd3 libaom3 libatomic1 libavif16 libblas3 libbrotli1 libcairo2 libcamd3 libccolamd3 libcholmod5 libcolamd3 libdav1d7 libdeflate0 libdsdp-5.8t64 libexpat1 libffi8 libfftw3-double3 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgav1-1 libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libglpk40 libgomp1 libgpg-error0 libgraphite2-3 libgsl28 libgslcblas0 libharfbuzz0b libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 liblerc4 libltdl7 libncursesw6 libopenjp2-7 libperl5.40 libpixman-1-0 libpng16-16t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.7 libreadline8t64 libsharpyuv0 libsuitesparseconfig7 libsvtav1enc2 libtcl8.6 libtiff6 libtk8.6 libumfpack6 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxrender1 libxslt1.1 libxss1 libyuv0 libzopfli1 mafft media-types netbase openssl perl perl-modules-5.40 pigz python-matplotlib-data python3 python3-asttokens python3-attr python3-autocommand python3-bcbio-gff python3-biopython python3-boto3 python3-botocore python3-brotli python3-cairo python3-certifi python3-chardet python3-charset-normalizer python3-contourpy python3-cvxopt python3-cycler python3-dateutil python3-decorator python3-dendropy python3-executing python3-fonttools python3-freetype python3-fs python3-idna python3-inflect python3-ipdb python3-ipython python3-isodate python3-jaraco.context python3-jaraco.functools python3-jaraco.text python3-jedi python3-jmespath python3-jsonschema python3-jsonschema-specifications python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-matplotlib-inline python3-minimal python3-more-itertools python3-mpmath python3-networkx python3-numpy python3-numpy-dev python3-packaging python3-pandas python3-pandas-lib python3-parso python3-pexpect python3-pil python3-pil.imagetk python3-pkg-resources python3-platformdirs python3-prompt-toolkit python3-ptyprocess python3-pure-eval python3-pyfaidx python3-pyfastx python3-pygments python3-pygtrie python3-pyparsing python3-pytz python3-referencing python3-reportlab python3-requests python3-rlpycairo python3-rpds-py python3-s3transfer python3-schedule python3-scipy python3-seaborn python3-setuptools python3-six python3-stack-data python3-sympy python3-tk python3-traitlets python3-treetime python3-typeguard python3-typeshed python3-typing-extensions python3-ufolib2 python3-unicodedata2 python3-urllib3 python3-wcwidth python3-xopen python3-zipp python3-zopfli python3-zstandard python3.13 python3.13-minimal python3.13-tk raxml readline-common seqmagick sgml-base tk8.6-blt2.5 unicode-data vcftools w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core Suggested packages: blt-demo fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre libfftw3-bin libfftw3-dev rng-tools gdbm-l10n low-memory-monitor libiodbc2-dev default-libmysqlclient-dev gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html liblcms2-utils sensible-utils tcl8.6 tk8.6 perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv python-attr-doc bwa clustalo clustalw dialign dssp emboss muscle3 phylip phyml prank probcons python3-mysqldb python3-mmtf python3-rdflib python3-psycopg2 python3-igraph samtools t-coffee wise python-charset-normalizer-doc python-cvxopt-doc python-cycler-doc python-ipython-doc python-jsonschema-doc python-lxml-doc cm-super-minimal dvipng ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 gir1.2-gtk-4.0 inkscape ipython3 librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-pyqt5 python3-sip python3-tornado texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 gcc gfortran python-numpy-doc python3-dev python3-pytest python-pandas-doc python3-statsmodels python-pexpect-doc python-pil-doc python-pygments-doc ttf-bitstream-vera python-pygtrie-doc python-pyparsing-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm python3-cryptography python3-openssl python3-socks python-requests-doc python-scipy-doc python-setuptools-doc texlive-fonts-extra python-sympy-doc tix python3-tk-dbg python-traitlets-doc python-zstandard-doc python3.13-venv python3.13-doc binutils binfmt-support readline-doc sgml-base-doc debhelper Recommended packages: iqtree libglib2.0-data shared-mime-info xdg-user-dirs libgpg-error-l10n libgpm2 ncbi-blast+ libwww-perl lynx ruby python-biopython-doc python3-fqdn python3-isoduration python3-json-pointer python3-rfc3339-validator python3-rfc3986-validator python3-rfc3987 python3-uritemplate python3-webcolors python3-bs4 python3-cssselect python3-html5lib python3-gdal python3-pydot python3-pygraphviz python3-yaml python3-tz python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-tables python3-jinja2 python3-numba python3-olefile fonts-dejavu-extra g++ | c++-compiler python3-pooch isympy-common python3-isal tabix The following NEW packages will be installed: augur blt ca-certificates fasttree fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-urw-base35 libabsl20240722 libamd3 libaom3 libatomic1 libavif16 libblas3 libbrotli1 libcairo2 libcamd3 libccolamd3 libcholmod5 libcolamd3 libdav1d7 libdeflate0 libdsdp-5.8t64 libexpat1 libffi8 libfftw3-double3 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgav1-1 libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libglpk40 libgomp1 libgpg-error0 libgraphite2-3 libgsl28 libgslcblas0 libharfbuzz0b libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 liblerc4 libltdl7 libncursesw6 libopenjp2-7 libperl5.40 libpixman-1-0 libpng16-16t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.7 libreadline8t64 libsharpyuv0 libsuitesparseconfig7 libsvtav1enc2 libtcl8.6 libtiff6 libtk8.6 libumfpack6 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxrender1 libxslt1.1 libxss1 libyuv0 libzopfli1 mafft media-types netbase openssl perl perl-modules-5.40 pigz python-matplotlib-data python3 python3-asttokens python3-attr python3-autocommand python3-bcbio-gff python3-biopython python3-boto3 python3-botocore python3-brotli python3-cairo python3-certifi python3-chardet python3-charset-normalizer python3-contourpy python3-cvxopt python3-cycler python3-dateutil python3-decorator python3-dendropy python3-executing python3-fonttools python3-freetype python3-fs python3-idna python3-inflect python3-ipdb python3-ipython python3-isodate python3-jaraco.context python3-jaraco.functools python3-jaraco.text python3-jedi python3-jmespath python3-jsonschema python3-jsonschema-specifications python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-matplotlib-inline python3-minimal python3-more-itertools python3-mpmath python3-networkx python3-numpy python3-numpy-dev python3-packaging python3-pandas python3-pandas-lib python3-parso python3-pexpect python3-pil python3-pil.imagetk python3-pkg-resources python3-platformdirs python3-prompt-toolkit python3-ptyprocess python3-pure-eval python3-pyfaidx python3-pyfastx python3-pygments python3-pygtrie python3-pyparsing python3-pytz python3-referencing python3-reportlab python3-requests python3-rlpycairo python3-rpds-py python3-s3transfer python3-schedule python3-scipy python3-seaborn python3-setuptools python3-six python3-stack-data python3-sympy python3-tk python3-traitlets python3-treetime python3-typeguard python3-typeshed python3-typing-extensions python3-ufolib2 python3-unicodedata2 python3-urllib3 python3-wcwidth python3-xopen python3-zipp python3-zopfli python3-zstandard python3.13 python3.13-minimal python3.13-tk raxml readline-common seqmagick sgml-base tk8.6-blt2.5 unicode-data vcftools w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 202 newly installed, 0 to remove and 0 not upgraded. Need to get 169 MB of archives. After this operation, 784 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.1-2 [108 kB] Get:2 http://deb.debian.org/debian forky/main amd64 pigz amd64 2.8-1 [62.7 kB] Get:3 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.7-1 [864 kB] Get:4 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.7-1 [2216 kB] Get:5 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.7-1 [27.2 kB] Get:6 http://deb.debian.org/debian forky/main amd64 media-types all 13.0.0 [29.3 kB] Get:7 http://deb.debian.org/debian forky/main amd64 netbase all 6.5 [12.4 kB] Get:8 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.5.2-2 [25.5 kB] Get:9 http://deb.debian.org/debian forky/main amd64 libncursesw6 amd64 6.5+20250216-2 [135 kB] Get:10 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get:11 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 kB] Get:12 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.7-1 [1960 kB] Get:13 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.7-1 [761 kB] Get:14 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.7-1 [10.2 kB] Get:15 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.7-1 [28.3 kB] Get:16 http://deb.debian.org/debian forky/main amd64 python3-numpy-dev amd64 1:2.2.4+ds-1.2 [142 kB] Get:17 http://deb.debian.org/debian forky/main amd64 libblas3 amd64 3.12.1-7 [215 kB] Get:18 http://deb.debian.org/debian forky/main amd64 libgfortran5 amd64 15.2.0-3 [894 kB] Get:19 http://deb.debian.org/debian forky/main amd64 liblapack3 amd64 3.12.1-7 [2785 kB] Get:20 http://deb.debian.org/debian forky/main amd64 python3-numpy amd64 1:2.2.4+ds-1.2 [5224 kB] Get:21 http://deb.debian.org/debian forky/main amd64 openssl amd64 3.5.2-1 [1493 kB] Get:22 http://deb.debian.org/debian forky/main amd64 ca-certificates all 20250419 [162 kB] Get:23 http://deb.debian.org/debian forky/main amd64 perl-modules-5.40 all 5.40.1-6 [3019 kB] Get:24 http://deb.debian.org/debian forky/main amd64 libgdbm6t64 amd64 1.26-1 [78.5 kB] Get:25 http://deb.debian.org/debian forky/main amd64 libgdbm-compat4t64 amd64 1.26-1 [52.8 kB] Get:26 http://deb.debian.org/debian forky/main amd64 libperl5.40 amd64 5.40.1-6 [4341 kB] Get:27 http://deb.debian.org/debian forky/main amd64 perl amd64 5.40.1-6 [267 kB] Get:28 http://deb.debian.org/debian forky/main amd64 python3-charset-normalizer amd64 3.4.3-1 [131 kB] Get:29 http://deb.debian.org/debian forky/main amd64 libtcl8.6 amd64 8.6.17+dfsg-1 [1041 kB] Get:30 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get:31 http://deb.debian.org/debian forky/main amd64 libpng16-16t64 amd64 1.6.50-1 [282 kB] Get:32 http://deb.debian.org/debian forky/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:33 http://deb.debian.org/debian forky/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:34 http://deb.debian.org/debian forky/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:35 http://deb.debian.org/debian forky/main amd64 libfontenc1 amd64 1:1.1.8-1+b2 [23.3 kB] Get:36 http://deb.debian.org/debian forky/main amd64 x11-common all 1:7.7+25 [217 kB] Get:37 http://deb.debian.org/debian forky/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get:38 http://deb.debian.org/debian forky/main amd64 xfonts-utils amd64 1:7.7+7 [93.3 kB] Get:39 http://deb.debian.org/debian forky/main amd64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get:40 http://deb.debian.org/debian forky/main amd64 fontconfig-config amd64 2.15.0-2.4 [318 kB] Get:41 http://deb.debian.org/debian forky/main amd64 libfontconfig1 amd64 2.15.0-2.4 [401 kB] Get:42 http://deb.debian.org/debian forky/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get:43 http://deb.debian.org/debian forky/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get:44 http://deb.debian.org/debian forky/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:45 http://deb.debian.org/debian forky/main amd64 libx11-data all 2:1.8.12-1 [343 kB] Get:46 http://deb.debian.org/debian forky/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB] Get:47 http://deb.debian.org/debian forky/main amd64 libxrender1 amd64 1:0.9.12-1 [27.9 kB] Get:48 http://deb.debian.org/debian forky/main amd64 libxft2 amd64 2.3.6-1+b4 [54.5 kB] Get:49 http://deb.debian.org/debian forky/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get:50 http://deb.debian.org/debian forky/main amd64 libxss1 amd64 1:1.2.3-1+b3 [17.0 kB] Get:51 http://deb.debian.org/debian forky/main amd64 libtk8.6 amd64 8.6.17-1 [794 kB] Get:52 http://deb.debian.org/debian forky/main amd64 python3.13-tk amd64 3.13.7-1 [108 kB] Get:53 http://deb.debian.org/debian forky/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-8 [591 kB] Get:54 http://deb.debian.org/debian forky/main amd64 blt amd64 2.5.3+dfsg-8 [5984 B] Get:55 http://deb.debian.org/debian forky/main amd64 python3-tk amd64 3.13.5-1 [9604 B] Get:56 http://deb.debian.org/debian forky/main amd64 python3-pil.imagetk amd64 11.3.0-1 [81.1 kB] Get:57 http://deb.debian.org/debian forky/main amd64 libaom3 amd64 3.12.1-1 [1871 kB] Get:58 http://deb.debian.org/debian forky/main amd64 libdav1d7 amd64 1.5.1-1 [559 kB] Get:59 http://deb.debian.org/debian forky/main amd64 libabsl20240722 amd64 20240722.0-4 [492 kB] Get:60 http://deb.debian.org/debian forky/main amd64 libgav1-1 amd64 0.19.0-3+b1 [353 kB] Get:61 http://deb.debian.org/debian forky/main amd64 librav1e0.7 amd64 0.7.1-9+b2 [946 kB] Get:62 http://deb.debian.org/debian forky/main amd64 libsvtav1enc2 amd64 2.3.0+dfsg-1 [2489 kB] Get:63 http://deb.debian.org/debian forky/main amd64 libjpeg62-turbo amd64 1:2.1.5-4 [168 kB] Get:64 http://deb.debian.org/debian forky/main amd64 libyuv0 amd64 0.0.1916.20250814-1 [172 kB] Get:65 http://deb.debian.org/debian forky/main amd64 libavif16 amd64 1.3.0-1 [135 kB] Get:66 http://deb.debian.org/debian forky/main amd64 libimagequant0 amd64 4.4.0-3 [251 kB] Get:67 http://deb.debian.org/debian forky/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get:68 http://deb.debian.org/debian forky/main amd64 libopenjp2-7 amd64 2.5.3-2.1 [204 kB] Get:69 http://deb.debian.org/debian forky/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB] Get:70 http://deb.debian.org/debian forky/main amd64 libatomic1 amd64 15.2.0-3 [10.7 kB] Get:71 http://deb.debian.org/debian forky/main amd64 libglib2.0-0t64 amd64 2.84.4-3 [1518 kB] Get:72 http://deb.debian.org/debian forky/main amd64 libgraphite2-3 amd64 1.3.14-3 [75.1 kB] Get:73 http://deb.debian.org/debian forky/main amd64 libharfbuzz0b amd64 11.4.5-1 [505 kB] Get:74 http://deb.debian.org/debian forky/main amd64 libraqm0 amd64 0.10.3-1 [14.0 kB] Get:75 http://deb.debian.org/debian forky/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get:76 http://deb.debian.org/debian forky/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get:77 http://deb.debian.org/debian forky/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get:78 http://deb.debian.org/debian forky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB] Get:79 http://deb.debian.org/debian forky/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB] Get:80 http://deb.debian.org/debian forky/main amd64 libtiff6 amd64 4.7.0-5 [364 kB] Get:81 http://deb.debian.org/debian forky/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [113 kB] Get:82 http://deb.debian.org/debian forky/main amd64 libwebpmux3 amd64 1.5.0-0.1 [126 kB] Get:83 http://deb.debian.org/debian forky/main amd64 python3-pil amd64 11.3.0-1 [526 kB] Get:84 http://deb.debian.org/debian forky/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get:85 http://deb.debian.org/debian forky/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get:86 http://deb.debian.org/debian forky/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get:87 http://deb.debian.org/debian forky/main amd64 libcairo2 amd64 1.18.4-1+b1 [538 kB] Get:88 http://deb.debian.org/debian forky/main amd64 python3-cairo amd64 1.27.0-2 [114 kB] Get:89 http://deb.debian.org/debian forky/main amd64 python3-freetype all 2.5.1-2 [89.4 kB] Get:90 http://deb.debian.org/debian forky/main amd64 python3-rlpycairo all 0.3.0-3 [9904 B] Get:91 http://deb.debian.org/debian forky/main amd64 python3-reportlab all 4.4.3-1 [1168 kB] Get:92 http://deb.debian.org/debian forky/main amd64 sgml-base all 1.31+nmu1 [10.9 kB] Get:93 http://deb.debian.org/debian forky/main amd64 xml-core all 0.19 [20.1 kB] Get:94 http://deb.debian.org/debian forky/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get:95 http://deb.debian.org/debian forky/main amd64 python3-biopython amd64 1.85+dfsg-4 [1672 kB] Get:96 http://deb.debian.org/debian forky/main amd64 python3-six all 1.17.0-1 [16.5 kB] Get:97 http://deb.debian.org/debian forky/main amd64 python3-bcbio-gff all 0.7.1-2 [33.7 kB] Get:98 http://deb.debian.org/debian forky/main amd64 libgomp1 amd64 15.2.0-3 [152 kB] Get:99 http://deb.debian.org/debian forky/main amd64 libsuitesparseconfig7 amd64 1:7.11.0+dfsg-2 [33.4 kB] Get:100 http://deb.debian.org/debian forky/main amd64 libamd3 amd64 1:7.11.0+dfsg-2 [51.0 kB] Get:101 http://deb.debian.org/debian forky/main amd64 libcamd3 amd64 1:7.11.0+dfsg-2 [47.8 kB] Get:102 http://deb.debian.org/debian forky/main amd64 libccolamd3 amd64 1:7.11.0+dfsg-2 [49.7 kB] Get:103 http://deb.debian.org/debian forky/main amd64 libcolamd3 amd64 1:7.11.0+dfsg-2 [42.4 kB] Get:104 http://deb.debian.org/debian forky/main amd64 libcholmod5 amd64 1:7.11.0+dfsg-2 [703 kB] Get:105 http://deb.debian.org/debian forky/main amd64 libdsdp-5.8t64 amd64 5.8-10.1 [181 kB] Get:106 http://deb.debian.org/debian forky/main amd64 libfftw3-double3 amd64 3.3.10-2+b1 [781 kB] Get:107 http://deb.debian.org/debian forky/main amd64 libltdl7 amd64 2.5.4-5 [416 kB] Get:108 http://deb.debian.org/debian forky/main amd64 libglpk40 amd64 5.0-2 [398 kB] Get:109 http://deb.debian.org/debian forky/main amd64 libgslcblas0 amd64 2.8+dfsg-5.1 [137 kB] Get:110 http://deb.debian.org/debian forky/main amd64 libgsl28 amd64 2.8+dfsg-5.1 [1068 kB] Get:111 http://deb.debian.org/debian forky/main amd64 libumfpack6 amd64 1:7.11.0+dfsg-2 [309 kB] Get:112 http://deb.debian.org/debian forky/main amd64 python3-cvxopt amd64 1.3.0+dfsg-1+b9 [265 kB] Get:113 http://deb.debian.org/debian forky/main amd64 python3-isodate all 0.7.2-1 [19.5 kB] Get:114 http://deb.debian.org/debian forky/main amd64 python3-attr all 25.3.0-1 [69.5 kB] Get:115 http://deb.debian.org/debian forky/main amd64 python3-rpds-py amd64 0.21.0-2+b1 [257 kB] Get:116 http://deb.debian.org/debian forky/main amd64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get:117 http://deb.debian.org/debian forky/main amd64 python3-referencing all 0.36.2-1 [23.7 kB] Get:118 http://deb.debian.org/debian forky/main amd64 python3-jsonschema-specifications all 2023.12.1-2 [9020 B] Get:119 http://deb.debian.org/debian forky/main amd64 python3-jsonschema all 4.19.2-6 [71.4 kB] Get:120 http://deb.debian.org/debian forky/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get:121 http://deb.debian.org/debian forky/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get:122 http://deb.debian.org/debian forky/main amd64 python3-typeguard all 4.4.4-1 [37.1 kB] Get:123 http://deb.debian.org/debian forky/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Get:124 http://deb.debian.org/debian forky/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get:125 http://deb.debian.org/debian forky/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get:126 http://deb.debian.org/debian forky/main amd64 python3-zipp all 3.23.0-1 [11.0 kB] Get:127 http://deb.debian.org/debian forky/main amd64 python3-setuptools all 78.1.1-0.1 [738 kB] Get:128 http://deb.debian.org/debian forky/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get:129 http://deb.debian.org/debian forky/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get:130 http://deb.debian.org/debian forky/main amd64 python3-networkx all 3.2.1-5 [13.0 MB] Get:131 http://deb.debian.org/debian forky/main amd64 python3-packaging all 25.0-1 [56.6 kB] Get:132 http://deb.debian.org/debian forky/main amd64 python3-dateutil all 2.9.0-4 [79.4 kB] Get:133 http://deb.debian.org/debian forky/main amd64 python3-pytz all 2025.2-3 [152 kB] Get:134 http://deb.debian.org/debian forky/main amd64 python3-pandas-lib amd64 2.2.3+dfsg-9 [4595 kB] Get:135 http://deb.debian.org/debian forky/main amd64 python3-pandas all 2.2.3+dfsg-9 [3097 kB] Get:136 http://deb.debian.org/debian forky/main amd64 python3-pyfaidx all 0.8.1.3-2 [29.1 kB] Get:137 http://deb.debian.org/debian forky/main amd64 python3-pyfastx amd64 2.2.0-1+b1 [58.1 kB] Get:138 http://deb.debian.org/debian forky/main amd64 python3-decorator all 5.2.1-2 [33.0 kB] Get:139 http://deb.debian.org/debian forky/main amd64 python3-scipy amd64 1.15.3-1.1 [17.0 MB] Get:140 http://deb.debian.org/debian forky/main amd64 fonts-lyx all 2.4.4-1 [190 kB] Get:141 http://deb.debian.org/debian forky/main amd64 python-matplotlib-data all 3.10.1+dfsg1-5 [2737 kB] Get:142 http://deb.debian.org/debian forky/main amd64 python3-pyparsing all 3.1.2-1 [146 kB] Get:143 http://deb.debian.org/debian forky/main amd64 python3-contourpy amd64 1.3.1-2 [215 kB] Get:144 http://deb.debian.org/debian forky/main amd64 python3-cycler all 0.12.1-2 [9616 B] Get:145 http://deb.debian.org/debian forky/main amd64 python3-brotli amd64 1.1.0-2+b7 [320 kB] Get:146 http://deb.debian.org/debian forky/main amd64 python3-platformdirs all 4.4.0-1 [16.7 kB] Get:147 http://deb.debian.org/debian forky/main amd64 python3-fs all 2.4.16-8 [95.2 kB] Get:148 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.2 [638 kB] Get:149 http://deb.debian.org/debian forky/main amd64 libgpg-error0 amd64 1.55-2 [88.1 kB] Get:150 http://deb.debian.org/debian forky/main amd64 libgcrypt20 amd64 1.11.2-2 [865 kB] Get:151 http://deb.debian.org/debian forky/main amd64 libxslt1.1 amd64 1.1.43-0.2 [155 kB] Get:152 http://deb.debian.org/debian forky/main amd64 python3-lxml amd64 6.0.1-1 [1434 kB] Get:153 http://deb.debian.org/debian forky/main amd64 python3-lz4 amd64 4.4.4+dfsg-1 [25.4 kB] Get:154 http://deb.debian.org/debian forky/main amd64 python3-mpmath all 1.3.0-1 [419 kB] Get:155 http://deb.debian.org/debian forky/main amd64 python3-sympy all 1.14.0-2 [4228 kB] Get:156 http://deb.debian.org/debian forky/main amd64 python3-ufolib2 all 0.17.1+dfsg1-1 [33.0 kB] Get:157 http://deb.debian.org/debian forky/main amd64 python3-unicodedata2 amd64 16.0.0+ds-1 [324 kB] Get:158 http://deb.debian.org/debian forky/main amd64 libzopfli1 amd64 1.0.3-3 [106 kB] Get:159 http://deb.debian.org/debian forky/main amd64 python3-zopfli amd64 0.2.3.post1-1+b1 [10.5 kB] Get:160 http://deb.debian.org/debian forky/main amd64 unicode-data all 16.0.0-1 [9197 kB] Get:161 http://deb.debian.org/debian forky/main amd64 python3-fonttools amd64 4.57.0-2 [1457 kB] Get:162 http://deb.debian.org/debian forky/main amd64 python3-kiwisolver amd64 1.4.7-3+b1 [62.0 kB] Get:163 http://deb.debian.org/debian forky/main amd64 libqhull-r8.0 amd64 2020.2-7 [248 kB] Get:164 http://deb.debian.org/debian forky/main amd64 python3-matplotlib amd64 3.10.1+dfsg1-5 [23.8 MB] Get:165 http://deb.debian.org/debian forky/main amd64 python3-treetime all 0.11.4-1 [938 kB] Get:166 http://deb.debian.org/debian forky/main amd64 python3-xopen all 1.7.0-3 [16.8 kB] Get:167 http://deb.debian.org/debian forky/main amd64 python3-jmespath all 1.0.1-1 [21.1 kB] Get:168 http://deb.debian.org/debian forky/main amd64 python3-urllib3 all 2.5.0-1 [116 kB] Get:169 http://deb.debian.org/debian forky/main amd64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get:170 http://deb.debian.org/debian forky/main amd64 python3-idna all 3.10-1 [42.0 kB] Get:171 http://deb.debian.org/debian forky/main amd64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get:172 http://deb.debian.org/debian forky/main amd64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Get:173 http://deb.debian.org/debian forky/main amd64 python3-botocore all 1.37.9+repack-1 [7311 kB] Get:174 http://deb.debian.org/debian forky/main amd64 python3-s3transfer all 0.11.4-1 [57.7 kB] Get:175 http://deb.debian.org/debian forky/main amd64 python3-boto3 all 1.37.9-1 [339 kB] Get:176 http://deb.debian.org/debian forky/main amd64 python3-dendropy all 4.6.1-2 [277 kB] Get:177 http://deb.debian.org/debian forky/main amd64 python3-schedule all 1.2.2-1 [14.9 kB] Get:178 http://deb.debian.org/debian forky/main amd64 python3-seaborn all 0.13.2-5 [215 kB] Get:179 http://deb.debian.org/debian forky/main amd64 python3-zstandard amd64 0.24.0-1 [351 kB] Get:180 http://deb.debian.org/debian forky/main amd64 python3-pygtrie all 2.2-3 [17.1 kB] Get:181 http://deb.debian.org/debian forky/main amd64 seqmagick all 0.8.6-3 [40.1 kB] Get:182 http://deb.debian.org/debian forky/main amd64 python3-parso all 0.8.4-1 [67.8 kB] Get:183 http://deb.debian.org/debian forky/main amd64 python3-typeshed all 0.0~git20241223.ea91db2-4 [1531 kB] Get:184 http://deb.debian.org/debian forky/main amd64 python3-jedi all 0.19.1+ds1-1 [691 kB] Get:185 http://deb.debian.org/debian forky/main amd64 python3-traitlets all 5.14.3+really5.14.3-1 [70.9 kB] Get:186 http://deb.debian.org/debian forky/main amd64 python3-matplotlib-inline all 0.1.7-1 [9032 B] Get:187 http://deb.debian.org/debian forky/main amd64 python3-wcwidth all 0.2.13+dfsg1-1 [24.9 kB] Get:188 http://deb.debian.org/debian forky/main amd64 python3-prompt-toolkit all 3.0.52-1 [280 kB] Get:189 http://deb.debian.org/debian forky/main amd64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Get:190 http://deb.debian.org/debian forky/main amd64 python3-asttokens all 3.0.0-2 [20.2 kB] Get:191 http://deb.debian.org/debian forky/main amd64 python3-executing all 2.2.0-0.3 [24.6 kB] Get:192 http://deb.debian.org/debian forky/main amd64 python3-pure-eval all 0.2.3-1 [11.2 kB] Get:193 http://deb.debian.org/debian forky/main amd64 python3-stack-data all 0.6.3-1 [21.6 kB] Get:194 http://deb.debian.org/debian forky/main amd64 python3-ptyprocess all 0.7.0-6 [14.5 kB] Get:195 http://deb.debian.org/debian forky/main amd64 python3-pexpect all 4.9-3 [55.6 kB] Get:196 http://deb.debian.org/debian forky/main amd64 python3-ipython all 8.35.0-2 [576 kB] Get:197 http://deb.debian.org/debian forky/main amd64 python3-ipdb all 0.13.13-3 [17.5 kB] Get:198 http://deb.debian.org/debian forky/main amd64 mafft amd64 7.525-1 [1186 kB] Get:199 http://deb.debian.org/debian forky/main amd64 raxml amd64 8.2.13+dfsg-2+b1 [1514 kB] Get:200 http://deb.debian.org/debian forky/main amd64 fasttree amd64 2.1.11-2 [181 kB] Get:201 http://deb.debian.org/debian forky/main amd64 vcftools amd64 0.1.17-1 [468 kB] Get:202 http://deb.debian.org/debian forky/main amd64 augur all 24.4.0-1 [261 kB] Preconfiguring packages ... Fetched 169 MB in 2s (106 MB/s) Selecting previously unselected package libexpat1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4945 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-2) ... Selecting previously unselected package pigz. Preparing to unpack .../archives/pigz_2.8-1_amd64.deb ... Unpacking pigz (2.8-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding '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' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding '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' Unpacking libreadline8t64:amd64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_amd64.deb ... Unpacking python3.13 (3.13.7-1) ... Selecting previously unselected package libpython3-stdlib:amd64. 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Setting up media-types (13.0.0) ... Setting up libgraphite2-3:amd64 (1.3.14-3) ... Setting up liblcms2-2:amd64 (2.16-2) ... Setting up libpixman-1-0:amd64 (0.44.0-3) ... Setting up libsharpyuv0:amd64 (1.5.0-0.1) ... Setting up libaom3:amd64 (3.12.1-1) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.5-1) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up libgdbm6t64:amd64 (1.26-1) ... Setting up libgpg-error0:amd64 (1.55-2) ... Setting up libgslcblas0:amd64 (2.8+dfsg-5.1) ... Setting up libgdbm-compat4t64:amd64 (1.26-1) ... Setting up libxcb-render0:amd64 (1.17.0-2+b1) ... Setting up libxml2-16:amd64 (2.14.5+dfsg-0.2) ... Setting up fonts-lyx (2.4.4-1) ... Setting up libbrotli1:amd64 (1.1.0-2+b7) ... Setting up x11-common (1:7.7+25) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libdeflate0:amd64 (1.23-2) ... Setting up libgcrypt20:amd64 (1.11.2-2) ... Setting up libqhull-r8.0:amd64 (2020.2-7) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libgomp1:amd64 (15.2.0-3) ... Setting up libabsl20240722:amd64 (20240722.0-4) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up unicode-data (16.0.0-1) ... Setting up libfontenc1:amd64 (1:1.1.8-1+b2) ... Setting up libblas3:amd64 (3.12.1-7) ... 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 (1:2.1.5-4) ... Setting up libzopfli1 (1.0.3-3) ... Setting up libx11-data (2:1.8.12-1) ... Setting up libsvtav1enc2:amd64 (2.3.0+dfsg-1) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.16-1) ... Setting up libimagequant0:amd64 (4.4.0-3) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.50-1) ... Setting up python3-numpy-dev:amd64 (1:2.2.4+ds-1.2) ... Setting up libatomic1:amd64 (15.2.0-3) ... Setting up libtcl8.6:amd64 (8.6.17+dfsg-1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libgav1-1:amd64 (0.19.0-3+b1) ... Setting up libncursesw6:amd64 (6.5+20250216-2) ... Setting up libltdl7:amd64 (2.5.4-5) ... Setting up libfftw3-double3:amd64 (3.3.10-2+b1) ... Setting up libgfortran5:amd64 (15.2.0-3) ... Setting up libwebp7:amd64 (1.5.0-0.1) ... Setting up libffi8:amd64 (3.5.2-2) ... Setting up libdav1d7:amd64 (1.5.1-1) ... Setting up perl-modules-5.40 (5.40.1-6) ... Setting up pigz (2.8-1) ... Setting up libtiff6:amd64 (4.7.0-5) ... Setting up librav1e0.7:amd64 (0.7.1-9+b2) ... Setting up libxslt1.1:amd64 (1.1.43-0.2) ... Setting up libsuitesparseconfig7:amd64 (1:7.11.0+dfsg-2) ... Setting up libopenjp2-7:amd64 (2.5.3-2.1) ... Setting up libx11-6:amd64 (2:1.8.12-1) ... Setting up fasttree (2.1.11-2) ... Setting up netbase (6.5) ... Setting up sgml-base (1.31+nmu1) ... Setting up libgsl28:amd64 (2.8+dfsg-5.1) ... Setting up python-matplotlib-data (3.10.1+dfsg1-5) ... Setting up openssl (3.5.2-1) ... Setting up libwebpmux3:amd64 (1.5.0-0.1) ... Setting up libyuv0:amd64 (0.0.1916.20250814-1) ... Setting up readline-common (8.3-3) ... Setting up raxml (8.2.13+dfsg-2+b1) ... Setting up libavif16:amd64 (1.3.0-1) ... Setting up liblapack3:amd64 (3.12.1-7) ... 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 libamd3:amd64 (1:7.11.0+dfsg-2) ... Setting up libxrender1:amd64 (1:0.9.12-1) ... Setting up libcolamd3:amd64 (1:7.11.0+dfsg-2) ... Setting up fontconfig-config (2.15.0-2.4) ... Setting up libwebpdemux2:amd64 (1.5.0-0.1) ... Setting up libxext6:amd64 (2:1.3.4-1+b3) ... Setting up libcamd3:amd64 (1:7.11.0+dfsg-2) ... Setting up libperl5.40:amd64 (5.40.1-6) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up perl (5.40.1-6) ... Setting up libglib2.0-0t64:amd64 (2.84.4-3) ... No schema files found: doing nothing. Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libglpk40:amd64 (5.0-2) ... Setting up libccolamd3:amd64 (1:7.11.0+dfsg-2) ... Setting up libreadline8t64:amd64 (8.3-3) ... Setting up xml-core (0.19) ... Setting up libharfbuzz0b:amd64 (11.4.5-1) ... Setting up libdsdp-5.8t64 (5.8-10.1) ... Setting up libxss1:amd64 (1:1.2.3-1+b3) ... Setting up libfontconfig1:amd64 (2.15.0-2.4) ... Setting up libpython3.13-stdlib:amd64 (3.13.7-1) ... Setting up libpython3-stdlib:amd64 (3.13.7-1) ... Setting up vcftools (0.1.17-1) ... Setting up libcholmod5:amd64 (1:7.11.0+dfsg-2) ... Setting up libxft2:amd64 (2.3.6-1+b4) ... Setting up python3.13 (3.13.7-1) ... Setting up mafft (7.525-1) ... Setting up libtk8.6:amd64 (8.6.17-1) ... Setting up python3 (3.13.7-1) ... Setting up python3-zipp (3.23.0-1) ... Setting up python3-freetype (2.5.1-2) ... Setting up xfonts-utils (1:7.7+7) ... Setting up python3-autocommand (2.2.2-3) ... Setting up libcairo2:amd64 (1.18.4-1+b1) ... Setting up python3.13-tk (3.13.7-1) ... Setting up python3-platformdirs (4.4.0-1) ... Setting up python3-zopfli (0.2.3.post1-1+b1) ... Setting up python3-fs (2.4.16-8) ... Setting up python3-six (1.17.0-1) ... Setting up python3-isodate (0.7.2-1) ... Setting up python3-decorator (5.2.1-2) ... Setting up python3-pygtrie (2.2-3) ... Setting up python3-pygments (2.18.0+dfsg-2) ... Setting up python3-xopen (1.7.0-3) ... Setting up python3-zstandard (0.24.0-1) ... Setting up python3-packaging (25.0-1) ... Setting up python3-chardet (5.2.0+dfsg-2) ... Setting up python3-wcwidth (0.2.13+dfsg1-1) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up python3-certifi (2025.1.31+ds-1) ... Setting up python3-typeshed (0.0~git20241223.ea91db2-4) ... Setting up python3-jmespath (1.0.1-1) ... Setting up python3-brotli (1.1.0-2+b7) ... Setting up libraqm0:amd64 (0.10.3-1) ... Setting up python3-cycler (0.12.1-2) ... Setting up python3-kiwisolver (1.4.7-3+b1) ... Setting up python3-idna (3.10-1) ... Setting up python3-typing-extensions (4.15.0-1) ... Setting up python3-numpy (1:2.2.4+ds-1.2) ... Setting up python3-urllib3 (2.5.0-1) ... Setting up python3-rpds-py (0.21.0-2+b1) ... Setting up libumfpack6:amd64 (1:7.11.0+dfsg-2) ... Setting up python3-lxml:amd64 (6.0.1-1) ... Setting up python3-traitlets (5.14.3+really5.14.3-1) ... Setting up python3-dateutil (2.9.0-4) ... Setting up python3-contourpy (1.3.1-2) ... Setting up python3-mpmath (1.3.0-1) ... Setting up python3-dendropy (4.6.1-2) ... Setting up python3-ptyprocess (0.7.0-6) ... Setting up python3-prompt-toolkit (3.0.52-1) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up python3-schedule (1.2.2-1) ... Setting up python3-pyfaidx (0.8.1.3-2) ... Setting up python3-sympy (1.14.0-2) ... Setting up python3-attr (25.3.0-1) ... Setting up python3-pure-eval (0.2.3-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-8) ... Setting up python3-scipy (1.15.3-1.1) ... Setting up python3-cairo (1.27.0-2) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-parso (0.8.4-1) ... Setting up python3-cvxopt (1.3.0+dfsg-1+b9) ... Setting up python3-lz4 (4.4.4+dfsg-1) ... Setting up python3-asttokens (3.0.0-2) ... Setting up python3-charset-normalizer (3.4.3-1) ... Setting up python3-unicodedata2 (16.0.0+ds-1) ... Setting up blt (2.5.3+dfsg-8) ... Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-9) ... Setting up python3-typeguard (4.4.4-1) ... Setting up python3-pyfastx (2.2.0-1+b1) ... Setting up python3-tk:amd64 (3.13.5-1) ... Setting up python3-pytz (2025.2-3) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up python3-matplotlib-inline (0.1.7-1) ... Setting up python3-pil:amd64 (11.3.0-1) ... Setting up python3-inflect (7.5.0-1) ... Setting up python3-pandas (2.2.3+dfsg-9) ... Setting up python3-pil.imagetk:amd64 (11.3.0-1) ... Setting up python3-executing (2.2.0-0.3) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-pexpect (4.9-3) ... Setting up python3-requests (2.32.5+dfsg-1) ... Setting up python3-reportlab (4.4.3-1) ... Setting up python3-stack-data (0.6.3-1) ... Setting up python3-referencing (0.36.2-1) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up python3-jedi (0.19.1+ds1-1) ... Setting up python3-networkx (3.2.1-5) ... Setting up python3-ipython (8.35.0-2) ... Setting up python3-botocore (1.37.9+repack-1) ... Setting up python3-ipdb (0.13.13-3) ... Setting up python3-jsonschema-specifications (2023.12.1-2) ... Setting up python3-s3transfer (0.11.4-1) ... Setting up python3-jsonschema (4.19.2-6) ... Setting up python3-boto3 (1.37.9-1) ... Setting up python3-fonttools (4.57.0-2) ... Setting up python3-ufolib2 (0.17.1+dfsg1-1) ... Setting up python3-matplotlib (3.10.1+dfsg1-5) ... Setting up python3-seaborn (0.13.2-5) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.85+dfsg-4) ... Setting up python3-treetime (0.11.4-1) ... Setting up seqmagick (0.8.6-3) ... Setting up python3-bcbio-gff (0.7.1-2) ... Setting up augur (24.4.0-1) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m56.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-y', 'install', 'augur'] 0m56.0s INFO: Running scripts post_install 0m56.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_install_exceptions'] 0m56.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_install_exceptions'] 0m56.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 0m57.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 0m57.3s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpeokaauip to sid 0m57.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m57.3s INFO: Running scripts pre_distupgrade 0m57.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m57.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m57.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_exceptions'] 0m57.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_exceptions'] 0m57.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m57.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m57.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m57.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m57.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m57.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m57.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', 'update'] 0m59.3s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [216 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.2 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7426 kB] Fetched 17.8 MB in 2s (11.4 MB/s) Reading package lists... 0m59.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', 'update'] 0m59.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-yf', 'dist-upgrade'] 1m1.4s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: augur gcc-14-base gcc-15-base libatomic1 libdsdp-5.8t64 libgcc-s1 libgfortran5 libgomp1 libgraphite2-3 libstdc++6 python3-biopython 11 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 4121 kB of archives. After this operation, 255 kB disk space will be freed. Get:1 http://deb.debian.org/debian sid/main amd64 gcc-15-base amd64 15.2.0-4 [52.8 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 15.2.0-4 [738 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 15.2.0-4 [140 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 15.2.0-4 [862 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 15.2.0-4 [9508 B] Get:6 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 15.2.0-4 [71.7 kB] Get:7 http://deb.debian.org/debian sid/main amd64 python3-biopython amd64 1.85+dfsg-5 [1674 kB] Get:8 http://deb.debian.org/debian sid/main amd64 augur all 24.4.0-3 [262 kB] Get:9 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.3.0-8 [52.1 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libdsdp-5.8t64 amd64 5.8-11 [183 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-7 [76.3 kB] Fetched 4121 kB in 0s (20.9 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40164 files and directories currently installed.) Preparing to unpack .../gcc-15-base_15.2.0-4_amd64.deb ... Unpacking gcc-15-base:amd64 (15.2.0-4) over (15.2.0-3) ... Setting up gcc-15-base:amd64 (15.2.0-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40164 files and directories currently installed.) Preparing to unpack .../libstdc++6_15.2.0-4_amd64.deb ... Unpacking libstdc++6:amd64 (15.2.0-4) over (15.2.0-3) ... Setting up libstdc++6:amd64 (15.2.0-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40164 files and directories currently installed.) Preparing to unpack .../libgomp1_15.2.0-4_amd64.deb ... Unpacking libgomp1:amd64 (15.2.0-4) over (15.2.0-3) ... Preparing to unpack .../libgfortran5_15.2.0-4_amd64.deb ... Unpacking libgfortran5:amd64 (15.2.0-4) over (15.2.0-3) ... Preparing to unpack .../libatomic1_15.2.0-4_amd64.deb ... Unpacking libatomic1:amd64 (15.2.0-4) over (15.2.0-3) ... Preparing to unpack .../libgcc-s1_15.2.0-4_amd64.deb ... Unpacking libgcc-s1:amd64 (15.2.0-4) over (15.2.0-3) ... Setting up libgcc-s1:amd64 (15.2.0-4) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 40164 files and directories currently installed.) Preparing to unpack .../python3-biopython_1.85+dfsg-5_amd64.deb ... Unpacking python3-biopython (1.85+dfsg-5) over (1.85+dfsg-4) ... Preparing to unpack .../augur_24.4.0-3_all.deb ... Unpacking augur (24.4.0-3) over (24.4.0-1) ... Preparing to unpack .../gcc-14-base_14.3.0-8_amd64.deb ... Unpacking gcc-14-base:amd64 (14.3.0-8) over (14.3.0-7) ... Preparing to unpack .../libdsdp-5.8t64_5.8-11_amd64.deb ... Unpacking libdsdp-5.8t64 (5.8-11) over (5.8-10.1) ... Preparing to unpack .../libgraphite2-3_1.3.14-7_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.14-7) over (1.3.14-3) ... Setting up libgraphite2-3:amd64 (1.3.14-7) ... Setting up gcc-14-base:amd64 (14.3.0-8) ... Setting up libgomp1:amd64 (15.2.0-4) ... Setting up libatomic1:amd64 (15.2.0-4) ... Setting up libgfortran5:amd64 (15.2.0-4) ... Setting up libdsdp-5.8t64 (5.8-11) ... Setting up python3-biopython (1.85+dfsg-5) ... Setting up augur (24.4.0-3) ... Processing triggers for libc-bin (2.41-12) ... 1m1.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-yf', 'dist-upgrade'] 1m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m1.6s DUMP: 7b8d5aaaff5428b3703b87a16fb8e061 - 1m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'show', '--no-all-versions', 'augur'] 1m1.7s DUMP: Package: augur Version: 24.4.0-3 Installed-Size: 1058 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-bcbio-gff, python3-biopython, python3-cvxopt, python3-importlib-resources | python3-supported-min (>= 3.11), python3-isodate, python3-jsonschema, python3-networkx, python3-numpy, python3-packaging, python3-pandas, python3-pyfastx, python3-scipy, python3-treetime (>= 0.9.4), python3-xopen (>= 1.7.0-1~), python3:any, python3-boto3, python3-dendropy, python3-matplotlib, python3-schedule, python3-seaborn, python3-zstandard, seqmagick, python3-ipdb, mafft, raxml, fasttree, vcftools Recommends: iqtree Description-en: pipeline components for real-time virus analysis The nextstrain project is an attempt to make flexible informatic pipelines and visualization tools to track ongoing pathogen evolution as sequence data emerges. The nextstrain project derives from nextflu, which was specific to influenza evolution. . nextstrain is comprised of three components: . * fauna: database and IO scripts for sequence and serological data * augur: informatic pipelines to conduct inferences from raw data * auspice: web app to visualize resulting inferences Description-md5: e2aaa44840d7b632d0e95700bc100196 Homepage: https://github.com/nextstrain/augur Section: science Priority: optional Filename: pool/main/a/augur/augur_24.4.0-3_all.deb Size: 261712 MD5sum: 5f0e121db7f92a14fd48ff94d6dc1ffc SHA256: 85a8d958ce86d25eb11d388c5d4b52df7a7b233ef0731e4b71484331bed813d4 1m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'show', '--no-all-versions', 'augur'] 1m1.7s INFO: apt-cache knows about the following packages: augur 1m1.7s INFO: Running scripts pre_install 1m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_database-server'] 1m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_database-server'] 1m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_exceptions'] 1m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_exceptions'] 1m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_extras'] 1m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_extras'] 1m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture'] 1m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture'] 1m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy'] 1m1.8s 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: 1m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy'] 1m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy', 'augur'] 1m1.8s DUMP: augur: Installed: 24.4.0-3 Candidate: 24.4.0-3 Version table: *** 24.4.0-3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy', 'augur'] 1m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-y', 'install', 'augur'] 1m2.1s DUMP: Reading package lists... Building dependency tree... Reading state information... augur is already the newest version (24.4.0-3). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-y', 'install', 'augur'] 1m2.1s INFO: Running scripts post_install 1m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_install_exceptions'] 1m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_install_exceptions'] 1m2.1s INFO: Running scripts post_distupgrade 1m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_exceptions'] 1m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_exceptions'] 1m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_zz_backports'] 1m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_distupgrade_zz_backports'] 1m2.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m3.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m3.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m4.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m4.8s INFO: Running scripts pre_install 1m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_database-server'] 1m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_database-server'] 1m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_exceptions'] 1m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_exceptions'] 1m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_extras'] 1m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_extras'] 1m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture'] 1m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture'] 1m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy'] 1m4.8s 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: 1m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy'] 1m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy', 'augur'] 1m4.8s DUMP: augur: Installed: 24.4.0-3 Candidate: 24.4.0-3 Version table: *** 24.4.0-3 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-cache', 'policy', 'augur'] 1m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-y', 'install', 'augur=24.4.0-3'] 1m5.1s DUMP: Reading package lists... Building dependency tree... Reading state information... augur is already the newest version (24.4.0-3). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', '-y', 'install', 'augur=24.4.0-3'] 1m5.1s INFO: Running scripts post_install 1m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_install_exceptions'] 1m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_install_exceptions'] 1m5.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m6.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m7.7s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpeokaauip', '-ac', '--ignore-obsolete'] 1m10.3s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpeokaauip', '-ac', '--ignore-obsolete'] 1m10.3s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m10.3s DUMP: 0.15.9~deb12u1 1m10.3s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m10.3s INFO: Running adequate version 0.15.9~deb12u1 now. 1m10.3s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'augur'] 1m10.3s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'augur'] 1m10.3s INFO: Running scripts pre_remove 1m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m14.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m14.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m14.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m14.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m14.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m14.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_exceptions'] 1m14.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/pre_remove_exceptions'] 1m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m14.2s DUMP: install ok installed apt apt 3.1.5 install ok installed augur augur 24.4.0-3 install ok installed base-files base-files 14 install ok installed base-passwd base-passwd 3.6.7 install ok installed bash bash 5.3-1 install ok installed blt blt 2.5.3+dfsg-8 install ok installed bsdutils bsdutils 1:2.41.1-3 install ok installed ca-certificates ca-certificates 20250419 install ok installed coreutils coreutils 9.7-3 install ok installed dash dash 0.5.12-12 install ok installed debconf debconf 1.5.91 install ok installed debian-archive-keyring debian-archive-keyring 2025.1 install ok installed debianutils debianutils 5.23.2 install ok installed diffutils diffutils 1:3.10-4 install ok installed dpkg dpkg 1.22.21 install ok installed fasttree fasttree 2.1.11-2 install ok installed findutils findutils 4.10.0-3 install ok installed fontconfig-config fontconfig-config 2.15.0-2.4 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-lyx fonts-lyx 2.4.4-1 install ok installed fonts-urw-base35 fonts-urw-base35 20200910-8 install ok installed gcc-14-base:amd64 gcc-14-base 14.3.0-8 install ok installed gcc-15-base:amd64 gcc-15-base 15.2.0-4 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 1.69 install ok installed libabsl20240722:amd64 libabsl20240722 20240722.0-4 install ok installed libacl1:amd64 libacl1 2.3.2-2+b1 install ok installed libamd3:amd64 libamd3 1:7.11.0+dfsg-2 install ok installed libaom3:amd64 libaom3 3.12.1-1 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.1.5 install ok installed libatomic1:amd64 libatomic1 15.2.0-4 install ok installed libattr1:amd64 libattr1 1:2.5.2-3 install ok installed libaudit-common libaudit-common 1:4.1.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.1.1-1 install ok installed libavif16:amd64 libavif16 1.3.0-1 install ok installed libblas3:amd64 libblas3 3.12.1-7 install ok installed libblkid1:amd64 libblkid1 2.41.1-3 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b7 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 2.41-12 install ok installed libc6:amd64 libc6 2.41-12 install ok installed libcairo2:amd64 libcairo2 1.18.4-1+b1 install ok installed libcamd3:amd64 libcamd3 1:7.11.0+dfsg-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4+b1 install ok installed libcap2:amd64 libcap2 1:2.75-10+b1 install ok installed libccolamd3:amd64 libccolamd3 1:7.11.0+dfsg-2 install ok installed libcholmod5:amd64 libcholmod5 1:7.11.0+dfsg-2 install ok installed libcolamd3:amd64 libcolamd3 1:7.11.0+dfsg-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.38-1 install ok installed libdav1d7:amd64 libdav1d7 1.5.1-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-9 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.280 install ok installed libdeflate0:amd64 libdeflate0 1.23-2 install ok installed libdsdp-5.8t64 libdsdp-5.8t64 5.8-11 install ok installed libexpat1:amd64 libexpat1 2.7.1-2 install ok installed libffi8:amd64 libffi8 3.5.2-2 install ok installed libfftw3-double3:amd64 libfftw3-double3 3.3.10-2+b1 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-2.4 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 libgav1-1:amd64 libgav1-1 0.19.0-3+b1 install ok installed libgcc-s1:amd64 libgcc-s1 15.2.0-4 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.2-2 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.26-1 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.26-1 install ok installed libgfortran5:amd64 libgfortran5 15.2.0-4 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.84.4-3 install ok installed libglpk40:amd64 libglpk40 5.0-2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5 install ok installed libgomp1:amd64 libgomp1 15.2.0-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.55-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-7 install ok installed libgsl28:amd64 libgsl28 2.8+dfsg-5.1 install ok installed libgslcblas0:amd64 libgslcblas0 2.8+dfsg-5.1 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 11.4.5-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.1-1 install ok installed libimagequant0:amd64 libimagequant0 4.4.0-3 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-4 install ok installed liblapack3:amd64 liblapack3 3.12.1-7 install ok installed liblastlog2-2:amd64 liblastlog2-2 2.41.1-3 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 libltdl7:amd64 libltdl7 2.5.4-5 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-4 install ok installed liblzma5:amd64 liblzma5 5.8.1-1.1 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.41.1-3 install ok installed libncursesw6:amd64 libncursesw6 6.5+20250216-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.1-1 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.3-2.1 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-5 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-5 install ok installed libpam-runtime libpam-runtime 1.7.0-5 install ok installed libpam0g:amd64 libpam0g 1.7.0-5 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.46-1 install ok installed libperl5.40:amd64 libperl5.40 5.40.1-6 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.44.0-3 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.50-1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.13.7-1 install ok installed libpython3.13-minimal:amd64 libpython3.13-minimal 3.13.7-1 install ok installed libpython3.13-stdlib:amd64 libpython3.13-stdlib 3.13.7-1 install ok installed libqhull-r8.0:amd64 libqhull-r8.0 2020.2-7 install ok installed libraqm0:amd64 libraqm0 0.10.3-1 install ok installed librav1e0.7:amd64 librav1e0.7 0.7.1-9+b2 install ok installed libreadline8t64:amd64 libreadline8t64 8.3-3 install ok installed libseccomp2:amd64 libseccomp2 2.6.0-2 install ok installed libselinux1:amd64 libselinux1 3.8.1-1 install ok installed libsemanage-common libsemanage-common 3.8.1-1 install ok installed libsemanage2:amd64 libsemanage2 3.8.1-1 install ok installed libsepol2:amd64 libsepol2 3.8.1-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.5.0-0.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.41.1-3 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-8 install ok installed libssl3t64:amd64 libssl3t64 3.5.2-1 install ok installed libstdc++6:amd64 libstdc++6 15.2.0-4 install ok installed libsuitesparseconfig7:amd64 libsuitesparseconfig7 1:7.11.0+dfsg-2 install ok installed libsvtav1enc2:amd64 libsvtav1enc2 2.3.0+dfsg-1 install ok installed libsystemd0:amd64 libsystemd0 258~rc4-1 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.17+dfsg-1 install ok installed libtiff6:amd64 libtiff6 4.7.0-5 install ok installed libtinfo6:amd64 libtinfo6 6.5+20250216-2 install ok installed libtk8.6:amd64 libtk8.6 8.6.17-1 install ok installed libudev1:amd64 libudev1 258~rc4-1 install ok installed libumfpack6:amd64 libumfpack6 1:7.11.0+dfsg-2 install ok installed libuuid1:amd64 libuuid1 2.41.1-3 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 2:1.8.12-1 install ok installed libx11-data libx11-data 2:1.8.12-1 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 libxft2:amd64 libxft2 2.3.6-1+b4 install ok installed libxml2-16:amd64 libxml2-16 2.14.5+dfsg-0.2 install ok installed libxrender1:amd64 libxrender1 1:0.9.12-1 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.43-0.2 install ok installed libxss1:amd64 libxss1 1:1.2.3-1+b3 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2 install ok installed libyuv0:amd64 libyuv0 0.0.1916.20250814-1 install ok installed libzopfli1 libzopfli1 1.0.3-3 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-1.1 install ok installed login login 1:4.16.0-2+really2.41.1-3 install ok installed login.defs login.defs 1:4.18.0-1 install ok installed mafft mafft 7.525-1 install ok installed mawk mawk 1.3.4.20250131-1 install ok installed media-types media-types 13.0.0 install ok installed mount mount 2.41.1-3 install ok installed ncurses-base ncurses-base 6.5+20250216-2 install ok installed ncurses-bin ncurses-bin 6.5+20250216-2 install ok installed netbase netbase 6.5 install ok installed openssl openssl 3.5.2-1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.5.2-1 install ok installed passwd passwd 1:4.18.0-1 install ok installed perl perl 5.40.1-6 install ok installed perl-base perl-base 5.40.1-6 install ok installed perl-modules-5.40 perl-modules-5.40 5.40.1-6 install ok installed pigz pigz 2.8-1 install ok installed python-matplotlib-data python-matplotlib-data 3.10.1+dfsg1-5 install ok installed python3 python3 3.13.7-1 install ok installed python3-asttokens python3-asttokens 3.0.0-2 install ok installed python3-attr python3-attr 25.3.0-1 install ok installed python3-autocommand python3-autocommand 2.2.2-3 install ok installed python3-bcbio-gff python3-bcbio-gff 0.7.1-2 install ok installed python3-biopython python3-biopython 1.85+dfsg-5 install ok installed python3-boto3 python3-boto3 1.37.9-1 install ok installed python3-botocore python3-botocore 1.37.9+repack-1 install ok installed python3-brotli python3-brotli 1.1.0-2+b7 install ok installed python3-cairo python3-cairo 1.27.0-2 install ok installed python3-certifi python3-certifi 2025.1.31+ds-1 install ok installed python3-chardet python3-chardet 5.2.0+dfsg-2 install ok installed python3-charset-normalizer python3-charset-normalizer 3.4.3-1 install ok installed python3-contourpy python3-contourpy 1.3.1-2 install ok installed python3-cvxopt python3-cvxopt 1.3.0+dfsg-1+b9 install ok installed python3-cycler python3-cycler 0.12.1-2 install ok installed python3-dateutil python3-dateutil 2.9.0-4 install ok installed python3-decorator python3-decorator 5.2.1-2 install ok installed python3-dendropy python3-dendropy 4.6.1-2 install ok installed python3-executing python3-executing 2.2.0-0.3 install ok installed python3-fonttools python3-fonttools 4.57.0-2 install ok installed python3-freetype python3-freetype 2.5.1-2 install ok installed python3-fs python3-fs 2.4.16-8 install ok installed python3-idna python3-idna 3.10-1 install ok installed python3-inflect python3-inflect 7.5.0-1 install ok installed python3-ipdb python3-ipdb 0.13.13-3 install ok installed python3-ipython python3-ipython 8.35.0-2 install ok installed python3-isodate python3-isodate 0.7.2-1 install ok installed python3-jaraco.context python3-jaraco.context 6.0.1-1 install ok installed python3-jaraco.functools python3-jaraco.functools 4.1.0-1 install ok installed python3-jaraco.text python3-jaraco.text 4.0.0-1 install ok installed python3-jedi python3-jedi 0.19.1+ds1-1 install ok installed python3-jmespath python3-jmespath 1.0.1-1 install ok installed python3-jsonschema python3-jsonschema 4.19.2-6 install ok installed python3-jsonschema-specifications python3-jsonschema-specifications 2023.12.1-2 install ok installed python3-kiwisolver python3-kiwisolver 1.4.7-3+b1 install ok installed python3-lxml:amd64 python3-lxml 6.0.1-1 install ok installed python3-lz4 python3-lz4 4.4.4+dfsg-1 install ok installed python3-matplotlib python3-matplotlib 3.10.1+dfsg1-5 install ok installed python3-matplotlib-inline python3-matplotlib-inline 0.1.7-1 install ok installed python3-minimal python3-minimal 3.13.7-1 install ok installed python3-more-itertools python3-more-itertools 10.8.0-1 install ok installed python3-mpmath python3-mpmath 1.3.0-1 install ok installed python3-networkx python3-networkx 3.2.1-5 install ok installed python3-numpy python3-numpy 1:2.2.4+ds-1.2 install ok installed python3-numpy-dev:amd64 python3-numpy-dev 1:2.2.4+ds-1.2 install ok installed python3-packaging python3-packaging 25.0-1 install ok installed python3-pandas python3-pandas 2.2.3+dfsg-9 install ok installed python3-pandas-lib:amd64 python3-pandas-lib 2.2.3+dfsg-9 install ok installed python3-parso python3-parso 0.8.4-1 install ok installed python3-pexpect python3-pexpect 4.9-3 install ok installed python3-pil:amd64 python3-pil 11.3.0-1 install ok installed python3-pil.imagetk:amd64 python3-pil.imagetk 11.3.0-1 install ok installed python3-pkg-resources python3-pkg-resources 78.1.1-0.1 install ok installed python3-platformdirs python3-platformdirs 4.4.0-1 install ok installed python3-prompt-toolkit python3-prompt-toolkit 3.0.52-1 install ok installed python3-ptyprocess python3-ptyprocess 0.7.0-6 install ok installed python3-pure-eval python3-pure-eval 0.2.3-1 install ok installed python3-pyfaidx python3-pyfaidx 0.8.1.3-2 install ok installed python3-pyfastx python3-pyfastx 2.2.0-1+b1 install ok installed python3-pygments python3-pygments 2.18.0+dfsg-2 install ok installed python3-pygtrie python3-pygtrie 2.2-3 install ok installed python3-pyparsing python3-pyparsing 3.1.2-1 install ok installed python3-pytz python3-pytz 2025.2-3 install ok installed python3-referencing python3-referencing 0.36.2-1 install ok installed python3-reportlab python3-reportlab 4.4.3-1 install ok installed python3-requests python3-requests 2.32.5+dfsg-1 install ok installed python3-rlpycairo python3-rlpycairo 0.3.0-3 install ok installed python3-rpds-py python3-rpds-py 0.21.0-2+b1 install ok installed python3-s3transfer python3-s3transfer 0.11.4-1 install ok installed python3-schedule python3-schedule 1.2.2-1 install ok installed python3-scipy python3-scipy 1.15.3-1.1 install ok installed python3-seaborn python3-seaborn 0.13.2-5 install ok installed python3-setuptools python3-setuptools 78.1.1-0.1 install ok installed python3-six python3-six 1.17.0-1 install ok installed python3-stack-data python3-stack-data 0.6.3-1 install ok installed python3-sympy python3-sympy 1.14.0-2 install ok installed python3-tk:amd64 python3-tk 3.13.5-1 install ok installed python3-traitlets python3-traitlets 5.14.3+really5.14.3-1 install ok installed python3-treetime python3-treetime 0.11.4-1 install ok installed python3-typeguard python3-typeguard 4.4.4-1 install ok installed python3-typeshed python3-typeshed 0.0~git20241223.ea91db2-4 install ok installed python3-typing-extensions python3-typing-extensions 4.15.0-1 install ok installed python3-ufolib2 python3-ufolib2 0.17.1+dfsg1-1 install ok installed python3-unicodedata2 python3-unicodedata2 16.0.0+ds-1 install ok installed python3-urllib3 python3-urllib3 2.5.0-1 install ok installed python3-wcwidth python3-wcwidth 0.2.13+dfsg1-1 install ok installed python3-xopen python3-xopen 1.7.0-3 install ok installed python3-zipp python3-zipp 3.23.0-1 install ok installed python3-zopfli python3-zopfli 0.2.3.post1-1+b1 install ok installed python3-zstandard python3-zstandard 0.24.0-1 install ok installed python3.13 python3.13 3.13.7-1 install ok installed python3.13-minimal python3.13-minimal 3.13.7-1 install ok installed python3.13-tk python3.13-tk 3.13.7-1 install ok installed raxml raxml 8.2.13+dfsg-2+b1 install ok installed readline-common readline-common 8.3-3 install ok installed sed sed 4.9-2 install ok installed seqmagick seqmagick 0.8.6-3 install ok installed sgml-base sgml-base 1.31+nmu1 install ok installed sqv sqv 1.3.0-3 install ok installed sysvinit-utils sysvinit-utils 3.14-4 install ok installed tar tar 1.35+dfsg-3.1 install ok installed tk8.6-blt2.5 tk8.6-blt2.5 2.5.3+dfsg-8 install ok installed tzdata tzdata 2025b-5 install ok installed unicode-data unicode-data 16.0.0-1 install ok installed util-linux util-linux 2.41.1-3 install ok installed vcftools vcftools 0.1.17-1 install ok installed w3c-sgml-lib w3c-sgml-lib 1.3-3 install ok installed x11-common x11-common 1:7.7+25 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 1m14.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m14.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', 'remove', '--allow-remove-essential', 'blt', 'ca-certificates', 'fasttree', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'libabsl20240722:amd64', 'libamd3:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcamd3:amd64', 'libccolamd3:amd64', 'libcholmod5:amd64', 'libcolamd3:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libdsdp-5.8t64', 'libexpat1:amd64', 'libffi8:amd64', 'libfftw3-double3:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-1:amd64', 'libgcrypt20:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libglpk40:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libharfbuzz0b:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libltdl7:amd64', 'libncursesw6:amd64', 'libopenjp2-7:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.7:amd64', 'libreadline8t64:amd64', 'libsharpyuv0:amd64', 'libsuitesparseconfig7:amd64', 'libsvtav1enc2:amd64', 'libtcl8.6:amd64', 'libtiff6:amd64', 'libtk8.6:amd64', 'libumfpack6: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', 'libxft2:amd64', 'libxml2-16:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyuv0:amd64', 'libzopfli1', 'mafft', 'media-types', 'netbase', 'openssl', 'perl', 'perl-modules-5.40', 'pigz', 'python-matplotlib-data', 'python3', 'python3-asttokens', 'python3-attr', 'python3-autocommand', 'python3-bcbio-gff', 'python3-biopython', 'python3-boto3', 'python3-botocore', 'python3-brotli', 'python3-cairo', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cvxopt', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-executing', 'python3-fonttools', 'python3-freetype', 'python3-fs', 'python3-idna', 'python3-inflect', 'python3-ipdb', 'python3-ipython', 'python3-isodate', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-jaraco.text', 'python3-jedi', 'python3-jmespath', 'python3-jsonschema', 'python3-jsonschema-specifications', 'python3-kiwisolver', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-matplotlib-inline', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-parso', 'python3-pexpect', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-platformdirs', 'python3-prompt-toolkit', 'python3-ptyprocess', 'python3-pure-eval', 'python3-pyfaidx', 'python3-pyfastx', 'python3-pygments', 'python3-pygtrie', 'python3-pyparsing', 'python3-pytz', 'python3-referencing', 'python3-reportlab', 'python3-requests', 'python3-rlpycairo', 'python3-rpds-py', 'python3-s3transfer', 'python3-schedule', 'python3-scipy', 'python3-seaborn', 'python3-setuptools', 'python3-six', 'python3-stack-data', 'python3-sympy', 'python3-tk:amd64', 'python3-traitlets', 'python3-treetime', 'python3-typeguard', 'python3-typeshed', 'python3-typing-extensions', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wcwidth', 'python3-xopen', 'python3-zipp', 'python3-zopfli', 'python3-zstandard', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'raxml', 'readline-common', 'seqmagick', 'sgml-base', 'tk8.6-blt2.5', 'unicode-data', 'vcftools', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'augur'] 1m37.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: augur blt ca-certificates fasttree fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-urw-base35 libabsl20240722 libamd3 libaom3 libatomic1 libavif16 libblas3 libbrotli1 libcairo2 libcamd3 libccolamd3 libcholmod5 libcolamd3 libdav1d7 libdeflate0 libdsdp-5.8t64 libexpat1 libffi8 libfftw3-double3 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgav1-1 libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libglpk40 libgomp1 libgpg-error0 libgraphite2-3 libgsl28 libgslcblas0 libharfbuzz0b libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 liblerc4 libltdl7 libncursesw6 libopenjp2-7 libperl5.40 libpixman-1-0 libpng16-16t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.7 libreadline8t64 libsharpyuv0 libsuitesparseconfig7 libsvtav1enc2 libtcl8.6 libtiff6 libtk8.6 libumfpack6 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxrender1 libxslt1.1 libxss1 libyuv0 libzopfli1 mafft media-types netbase openssl perl perl-modules-5.40 pigz python-matplotlib-data python3 python3-asttokens python3-attr python3-autocommand python3-bcbio-gff python3-biopython python3-boto3 python3-botocore python3-brotli python3-cairo python3-certifi python3-chardet python3-charset-normalizer python3-contourpy python3-cvxopt python3-cycler python3-dateutil python3-decorator python3-dendropy python3-executing python3-fonttools python3-freetype python3-fs python3-idna python3-inflect python3-ipdb python3-ipython python3-isodate python3-jaraco.context python3-jaraco.functools python3-jaraco.text python3-jedi python3-jmespath python3-jsonschema python3-jsonschema-specifications python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-matplotlib-inline python3-minimal python3-more-itertools python3-mpmath python3-networkx python3-numpy python3-numpy-dev python3-packaging python3-pandas python3-pandas-lib python3-parso python3-pexpect python3-pil python3-pil.imagetk python3-pkg-resources python3-platformdirs python3-prompt-toolkit python3-ptyprocess python3-pure-eval python3-pyfaidx python3-pyfastx python3-pygments python3-pygtrie python3-pyparsing python3-pytz python3-referencing python3-reportlab python3-requests python3-rlpycairo python3-rpds-py python3-s3transfer python3-schedule python3-scipy python3-seaborn python3-setuptools python3-six python3-stack-data python3-sympy python3-tk python3-traitlets python3-treetime python3-typeguard python3-typeshed python3-typing-extensions python3-ufolib2 python3-unicodedata2 python3-urllib3 python3-wcwidth python3-xopen python3-zipp python3-zopfli python3-zstandard python3.13 python3.13-minimal python3.13-tk raxml readline-common seqmagick sgml-base tk8.6-blt2.5 unicode-data vcftools w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 0 newly installed, 202 to remove and 0 not upgraded. After this operation, 784 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 ... 40163 files and directories currently installed.) Removing augur (24.4.0-3) ... Removing seqmagick (0.8.6-3) ... Removing python3-treetime (0.11.4-1) ... Removing python3-seaborn (0.13.2-5) ... Removing python3-matplotlib (3.10.1+dfsg1-5) ... Removing python3-pil.imagetk:amd64 (11.3.0-1) ... Removing python3-tk:amd64 (3.13.5-1) ... Removing blt (2.5.3+dfsg-8) ... Removing python3-boto3 (1.37.9-1) ... Removing python3-s3transfer (0.11.4-1) ... Removing python3-botocore (1.37.9+repack-1) ... Removing python3-requests (2.32.5+dfsg-1) ... Removing python3-certifi (2025.1.31+ds-1) ... Removing ca-certificates (20250419) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing fasttree (2.1.11-2) ... Removing tk8.6-blt2.5 (2.5.3+dfsg-8) ... Removing python3.13-tk (3.13.7-1) ... Removing libtk8.6:amd64 (8.6.17-1) ... Removing libxft2:amd64 (2.3.6-1+b4) ... Removing python-matplotlib-data (3.10.1+dfsg1-5) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing fonts-lyx (2.4.4-1) ... Removing python3-cvxopt (1.3.0+dfsg-1+b9) ... Removing libumfpack6:amd64 (1:7.11.0+dfsg-2) ... Removing libcholmod5:amd64 (1:7.11.0+dfsg-2) ... Removing python3-pandas (2.2.3+dfsg-9) ... Removing python3-pandas-lib:amd64 (2.2.3+dfsg-9) ... Removing libdsdp-5.8t64 (5.8-11) ... Removing libcamd3:amd64 (1:7.11.0+dfsg-2) ... Removing libccolamd3:amd64 (1:7.11.0+dfsg-2) ... Removing libglpk40:amd64 (5.0-2) ... Removing libcolamd3:amd64 (1:7.11.0+dfsg-2) ... Removing python3-jsonschema (4.19.2-6) ... Removing python3-jsonschema-specifications (2023.12.1-2) ... Removing python3-referencing (0.36.2-1) ... Removing python3-rpds-py (0.21.0-2+b1) ... Removing python3-ipdb (0.13.13-3) ... Removing python3-ipython (8.35.0-2) ... Removing python3-prompt-toolkit (3.0.52-1) ... Removing python3-wcwidth (0.2.13+dfsg1-1) ... Removing python3-networkx (3.2.1-5) ... Removing python3-setuptools (78.1.1-0.1) ... Removing python3-jaraco.text (4.0.0-1) ... Removing python3-zstandard (0.24.0-1) ... Removing python3-jedi (0.19.1+ds1-1) ... Removing python3-typeshed (0.0~git20241223.ea91db2-4) ... Removing libfftw3-double3:amd64 (3.3.10-2+b1) ... Removing vcftools (0.1.17-1) ... Removing mafft (7.525-1) ... Removing perl (5.40.1-6) ... Removing libperl5.40:amd64 (5.40.1-6) ... Removing libgdbm-compat4t64:amd64 (1.26-1) ... Removing libgdbm6t64:amd64 (1.26-1) ... Removing libgsl28:amd64 (2.8+dfsg-5.1) ... Removing libgslcblas0:amd64 (2.8+dfsg-5.1) ... Removing libltdl7:amd64 (2.5.4-5) ... Removing libqhull-r8.0:amd64 (2020.2-7) ... Removing libtcl8.6:amd64 (8.6.17+dfsg-1) ... Removing libxss1:amd64 (1:1.2.3-1+b3) ... Removing openssl (3.5.2-1) ... Removing perl-modules-5.40 (5.40.1-6) ... Removing python3-xopen (1.7.0-3) ... Removing pigz (2.8-1) ... Removing python3-stack-data (0.6.3-1) ... Removing python3-executing (2.2.0-0.3) ... Removing python3-asttokens (3.0.0-2) ... Removing python3-bcbio-gff (0.7.1-2) ... Removing python3-chardet (5.2.0+dfsg-2) ... Removing python3-contourpy (1.3.1-2) ... Removing python3-cycler (0.12.1-2) ... Removing python3-dateutil (2.9.0-4) ... Removing python3-dendropy (4.6.1-2) ... Removing python3-idna (3.10-1) ... Removing python3-isodate (0.7.2-1) ... Removing python3-jmespath (1.0.1-1) ... Removing python3-kiwisolver (1.4.7-3+b1) ... Removing python3-matplotlib-inline (0.1.7-1) ... Removing python3-pyfastx (2.2.0-1+b1) ... Removing python3-pyfaidx (0.8.1.3-2) ... Removing python3-packaging (25.0-1) ... Removing python3-parso (0.8.4-1) ... Removing python3-pexpect (4.9-3) ... Removing python3-ptyprocess (0.7.0-6) ... Removing python3-pure-eval (0.2.3-1) ... Removing python3-pygments (2.18.0+dfsg-2) ... Removing python3-pygtrie (2.2-3) ... Removing python3-pyparsing (3.1.2-1) ... Removing python3-pytz (2025.2-3) ... Removing python3-schedule (1.2.2-1) ... Removing python3-six (1.17.0-1) ... Removing python3-traitlets (5.14.3+really5.14.3-1) ... Removing python3-urllib3 (2.5.0-1) ... Removing python3-zipp (3.23.0-1) ... Removing raxml (8.2.13+dfsg-2+b1) ... Removing python3-biopython (1.85+dfsg-5) ... Removing python3-reportlab (4.4.3-1) ... Removing python3-pil:amd64 (11.3.0-1) ... Removing python3-rlpycairo (0.3.0-3) ... Removing python3-cairo (1.27.0-2) ... Removing libcairo2:amd64 (1.18.4-1+b1) ... Removing libfontconfig1:amd64 (2.15.0-2.4) ... Removing fontconfig-config (2.15.0-2.4) ... Removing fonts-urw-base35 (20200910-8) ... Removing libavif16:amd64 (1.3.0-1) ... Removing libgav1-1:amd64 (0.19.0-3+b1) ... Removing libabsl20240722:amd64 (20240722.0-4) ... Removing libamd3:amd64 (1:7.11.0+dfsg-2) ... Removing libaom3:amd64 (3.12.1-1) ... Removing libraqm0:amd64 (0.10.3-1) ... Removing libharfbuzz0b:amd64 (11.4.5-1) ... Removing libglib2.0-0t64:amd64 (2.84.4-3) ... Removing libatomic1:amd64 (15.2.0-4) ... Removing xfonts-utils (1:7.7+7) ... Removing python3-freetype (2.5.1-2) ... Removing libfreetype6:amd64 (2.13.3+dfsg-1) ... Removing libbrotli1:amd64 (1.1.0-2+b7) ... Removing libdav1d7:amd64 (1.5.1-1) ... Removing libtiff6:amd64 (4.7.0-5) ... Removing libdeflate0:amd64 (1.23-2) ... Removing python3-pkg-resources (78.1.1-0.1) ... Removing python3-jaraco.context (6.0.1-1) ... Removing python3-inflect (7.5.0-1) ... Removing python3-typeguard (4.4.4-1) ... Removing libfontenc1:amd64 (1:1.1.8-1+b2) ... Removing libfribidi0:amd64 (1.0.16-1) ... Removing libsuitesparseconfig7:amd64 (1:7.11.0+dfsg-2) ... Removing libgomp1:amd64 (15.2.0-4) ... Removing libgraphite2-3:amd64 (1.3.14-7) ... Removing libimagequant0:amd64 (4.4.0-3) ... Removing libjbig0:amd64 (2.1-6.1+b2) ... Removing libyuv0:amd64 (0.0.1916.20250814-1) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-4) ... Removing liblcms2-2:amd64 (2.16-2) ... Removing liblerc4:amd64 (4.0.0+ds-5) ... Removing libopenjp2-7:amd64 (2.5.3-2.1) ... Removing libpixman-1-0:amd64 (0.44.0-3) ... Removing libpng16-16t64:amd64 (1.6.50-1) ... Removing librav1e0.7:amd64 (0.7.1-9+b2) ... 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 libsvtav1enc2:amd64 (2.3.0+dfsg-1) ... Removing libxrender1:amd64 (1:0.9.12-1) ... Removing libxcb-shm0:amd64 (1.17.0-2+b1) ... Removing libxcb-render0:amd64 (1.17.0-2+b1) ... Removing libxext6:amd64 (2:1.3.4-1+b3) ... Removing python3-autocommand (2.2.2-3) ... Removing python3-charset-normalizer (3.4.3-1) ... Removing python3-jaraco.functools (4.1.0-1) ... Removing python3-more-itertools (10.8.0-1) ... Removing python3-typing-extensions (4.15.0-1) ... Removing w3c-sgml-lib (1.3-3) ... Removing xml-core (0.19) ... Removing sgml-base (1.31+nmu1) ... Removing xfonts-encodings (1:1.0.4-2.2) ... Removing x11-common (1:7.7+25) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing libx11-6:amd64 (2:1.8.12-1) ... Removing libx11-data (2:1.8.12-1) ... 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 python3-fonttools (4.57.0-2) ... Removing python3-scipy (1.15.3-1.1) ... Removing python3-numpy (1:2.2.4+ds-1.2) ... Removing liblapack3:amd64 (3.12.1-7) ... Removing libblas3:amd64 (3.12.1-7) ... Removing python3-lxml:amd64 (6.0.1-1) ... Removing libxslt1.1:amd64 (1.1.43-0.2) ... Removing libgcrypt20:amd64 (1.11.2-2) ... Removing libgfortran5:amd64 (15.2.0-4) ... Removing libgpg-error0:amd64 (1.55-2) ... Removing libxml2-16:amd64 (2.14.5+dfsg-0.2) ... Removing python3-zopfli (0.2.3.post1-1+b1) ... Removing libzopfli1 (1.0.3-3) ... Removing python3-brotli (1.1.0-2+b7) ... Removing python3-decorator (5.2.1-2) ... Removing python3-fs (2.4.16-8) ... Removing python3-lz4 (4.4.4+dfsg-1) ... Removing python3-sympy (1.14.0-2) ... Removing python3-mpmath (1.3.0-1) ... Removing python3-numpy-dev:amd64 (1:2.2.4+ds-1.2) ... Removing python3-platformdirs (4.4.0-1) ... Removing python3-unicodedata2 (16.0.0+ds-1) ... Removing unicode-data (16.0.0-1) ... Removing python3-ufolib2 (0.17.1+dfsg1-1) ... Removing python3-attr (25.3.0-1) ... Removing python3 (3.13.7-1) ... Removing python3-minimal (3.13.7-1) ... Removing python3.13 (3.13.7-1) ... Removing python3.13-minimal (3.13.7-1) ... Removing libexpat1:amd64 (2.7.1-2) ... Removing libpython3-stdlib:amd64 (3.13.7-1) ... Removing libpython3.13-stdlib:amd64 (3.13.7-1) ... find: '/usr/lib/python3': No such file or directory Removing libffi8:amd64 (3.5.2-2) ... Removing libncursesw6:amd64 (6.5+20250216-2) ... Removing libpython3.13-minimal:amd64 (3.13.7-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8t64:amd64 (8.3-3) ... 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 media-types (13.0.0) ... Removing netbase (6.5) ... Removing readline-common (8.3-3) ... Processing triggers for libc-bin (2.41-12) ... 1m37.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', 'remove', '--allow-remove-essential', 'blt', 'ca-certificates', 'fasttree', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'libabsl20240722:amd64', 'libamd3:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcamd3:amd64', 'libccolamd3:amd64', 'libcholmod5:amd64', 'libcolamd3:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libdsdp-5.8t64', 'libexpat1:amd64', 'libffi8:amd64', 'libfftw3-double3:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-1:amd64', 'libgcrypt20:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libglpk40:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libharfbuzz0b:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libltdl7:amd64', 'libncursesw6:amd64', 'libopenjp2-7:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.7:amd64', 'libreadline8t64:amd64', 'libsharpyuv0:amd64', 'libsuitesparseconfig7:amd64', 'libsvtav1enc2:amd64', 'libtcl8.6:amd64', 'libtiff6:amd64', 'libtk8.6:amd64', 'libumfpack6: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', 'libxft2:amd64', 'libxml2-16:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyuv0:amd64', 'libzopfli1', 'mafft', 'media-types', 'netbase', 'openssl', 'perl', 'perl-modules-5.40', 'pigz', 'python-matplotlib-data', 'python3', 'python3-asttokens', 'python3-attr', 'python3-autocommand', 'python3-bcbio-gff', 'python3-biopython', 'python3-boto3', 'python3-botocore', 'python3-brotli', 'python3-cairo', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cvxopt', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-executing', 'python3-fonttools', 'python3-freetype', 'python3-fs', 'python3-idna', 'python3-inflect', 'python3-ipdb', 'python3-ipython', 'python3-isodate', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-jaraco.text', 'python3-jedi', 'python3-jmespath', 'python3-jsonschema', 'python3-jsonschema-specifications', 'python3-kiwisolver', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-matplotlib-inline', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-parso', 'python3-pexpect', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-platformdirs', 'python3-prompt-toolkit', 'python3-ptyprocess', 'python3-pure-eval', 'python3-pyfaidx', 'python3-pyfastx', 'python3-pygments', 'python3-pygtrie', 'python3-pyparsing', 'python3-pytz', 'python3-referencing', 'python3-reportlab', 'python3-requests', 'python3-rlpycairo', 'python3-rpds-py', 'python3-s3transfer', 'python3-schedule', 'python3-scipy', 'python3-seaborn', 'python3-setuptools', 'python3-six', 'python3-stack-data', 'python3-sympy', 'python3-tk:amd64', 'python3-traitlets', 'python3-treetime', 'python3-typeguard', 'python3-typeshed', 'python3-typing-extensions', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wcwidth', 'python3-xopen', 'python3-zipp', 'python3-zopfli', 'python3-zstandard', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'raxml', 'readline-common', 'seqmagick', 'sgml-base', 'tk8.6-blt2.5', 'unicode-data', 'vcftools', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'augur'] 1m37.8s INFO: Running scripts post_remove 1m37.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_remove_exceptions'] 1m37.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_remove_exceptions'] 1m37.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg', '--purge', 'blt', 'ca-certificates', 'fasttree', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'libabsl20240722:amd64', 'libamd3:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcamd3:amd64', 'libccolamd3:amd64', 'libcholmod5:amd64', 'libcolamd3:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libdsdp-5.8t64', 'libexpat1:amd64', 'libffi8:amd64', 'libfftw3-double3:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-1:amd64', 'libgcrypt20:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libglpk40:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libharfbuzz0b:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libltdl7:amd64', 'libncursesw6:amd64', 'libopenjp2-7:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.7:amd64', 'libreadline8t64:amd64', 'libsharpyuv0:amd64', 'libsuitesparseconfig7:amd64', 'libsvtav1enc2:amd64', 'libtcl8.6:amd64', 'libtiff6:amd64', 'libtk8.6:amd64', 'libumfpack6: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', 'libxft2:amd64', 'libxml2-16:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyuv0:amd64', 'libzopfli1', 'mafft', 'media-types', 'netbase', 'openssl', 'perl', 'perl-modules-5.40', 'pigz', 'python-matplotlib-data', 'python3', 'python3-asttokens', 'python3-attr', 'python3-autocommand', 'python3-bcbio-gff', 'python3-biopython', 'python3-boto3', 'python3-botocore', 'python3-brotli', 'python3-cairo', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cvxopt', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-executing', 'python3-fonttools', 'python3-freetype', 'python3-fs', 'python3-idna', 'python3-inflect', 'python3-ipdb', 'python3-ipython', 'python3-isodate', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-jaraco.text', 'python3-jedi', 'python3-jmespath', 'python3-jsonschema', 'python3-jsonschema-specifications', 'python3-kiwisolver', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-matplotlib-inline', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-parso', 'python3-pexpect', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-platformdirs', 'python3-prompt-toolkit', 'python3-ptyprocess', 'python3-pure-eval', 'python3-pyfaidx', 'python3-pyfastx', 'python3-pygments', 'python3-pygtrie', 'python3-pyparsing', 'python3-pytz', 'python3-referencing', 'python3-reportlab', 'python3-requests', 'python3-rlpycairo', 'python3-rpds-py', 'python3-s3transfer', 'python3-schedule', 'python3-scipy', 'python3-seaborn', 'python3-setuptools', 'python3-six', 'python3-stack-data', 'python3-sympy', 'python3-tk:amd64', 'python3-traitlets', 'python3-treetime', 'python3-typeguard', 'python3-typeshed', 'python3-typing-extensions', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wcwidth', 'python3-xopen', 'python3-zipp', 'python3-zopfli', 'python3-zstandard', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'raxml', 'readline-common', 'seqmagick', 'sgml-base', 'tk8.6-blt2.5', 'unicode-data', 'vcftools', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 1m38.1s DUMP: dpkg: warning: ignoring request to remove blt which isn't installed (Reading database ... 5009 files and directories currently installed.) Purging configuration files for ca-certificates (20250419) ... Removing dangling symlinks from /etc/ssl/certs... done. dpkg: warning: ignoring request to remove fasttree which isn't installed Purging configuration files for fontconfig-config (2.15.0-2.4) ... Purging configuration files for fonts-dejavu-core (2.37-8) ... Purging configuration files for fonts-dejavu-mono (2.37-8) ... dpkg: warning: ignoring request to remove fonts-lyx which isn't installed Purging configuration files for fonts-urw-base35 (20200910-8) ... dpkg: warning: ignoring request to remove libabsl20240722 which isn't installed dpkg: warning: ignoring request to remove libamd3 which isn't installed dpkg: warning: ignoring request to remove libaom3 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libavif16 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 libcamd3 which isn't installed dpkg: warning: ignoring request to remove libccolamd3 which isn't installed dpkg: warning: ignoring request to remove libcholmod5 which isn't installed dpkg: warning: ignoring request to remove libcolamd3 which isn't installed dpkg: warning: ignoring request to remove libdav1d7 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libdsdp-5.8t64 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 libfftw3-double3 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 libgav1-1 which isn't installed dpkg: warning: ignoring request to remove libgcrypt20 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4t64 which isn't installed dpkg: warning: ignoring request to remove libgdbm6t64 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.84.4-3) ... dpkg: warning: ignoring request to remove libglpk40 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgpg-error0 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed dpkg: warning: ignoring request to remove libgsl28 which isn't installed dpkg: warning: ignoring request to remove libgslcblas0 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 libltdl7 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 libperl5.40 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 (3.13.7-1) ... dpkg: warning: ignoring request to remove libpython3.13-stdlib which isn't installed dpkg: warning: ignoring request to remove libqhull-r8.0 which isn't installed dpkg: warning: ignoring request to remove libraqm0 which isn't installed dpkg: warning: ignoring request to remove librav1e0.7 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.3-3) ... dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsuitesparseconfig7 which isn't installed dpkg: warning: ignoring request to remove libsvtav1enc2 which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libumfpack6 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 libxft2 which isn't installed dpkg: warning: ignoring request to remove libxml2-16 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxslt1.1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libyuv0 which isn't installed dpkg: warning: ignoring request to remove libzopfli1 which isn't installed dpkg: warning: ignoring request to remove mafft which isn't installed Purging configuration files for media-types (13.0.0) ... Purging configuration files for netbase (6.5) ... Purging configuration files for openssl (3.5.2-1) ... Purging configuration files for perl (5.40.1-6) ... dpkg: warning: ignoring request to remove perl-modules-5.40 which isn't installed dpkg: warning: ignoring request to remove pigz which isn't installed Purging configuration files for python-matplotlib-data (3.10.1+dfsg1-5) ... Purging configuration files for python3 (3.13.7-1) ... dpkg: warning: ignoring request to remove python3-asttokens which isn't installed dpkg: warning: ignoring request to remove python3-attr which isn't installed dpkg: warning: ignoring request to remove python3-autocommand which isn't installed dpkg: warning: ignoring request to remove python3-bcbio-gff which isn't installed dpkg: warning: ignoring request to remove python3-biopython which isn't installed dpkg: warning: ignoring request to remove python3-boto3 which isn't installed dpkg: warning: ignoring request to remove python3-botocore which isn't installed dpkg: warning: ignoring request to remove python3-brotli which isn't installed dpkg: warning: ignoring request to remove python3-cairo which isn't installed dpkg: warning: ignoring request to remove python3-certifi which isn't installed dpkg: warning: ignoring request to remove python3-chardet which isn't installed dpkg: warning: ignoring request to remove python3-charset-normalizer which isn't installed dpkg: warning: ignoring request to remove python3-contourpy which isn't installed dpkg: warning: ignoring request to remove python3-cvxopt which isn't installed dpkg: warning: ignoring request to remove python3-cycler which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-decorator which isn't installed dpkg: warning: ignoring request to remove python3-dendropy which isn't installed dpkg: warning: ignoring request to remove python3-executing which isn't installed dpkg: warning: ignoring request to remove python3-fonttools which isn't installed dpkg: warning: ignoring request to remove python3-freetype which isn't installed dpkg: warning: ignoring request to remove python3-fs which isn't installed dpkg: warning: ignoring request to remove python3-idna which isn't installed dpkg: warning: ignoring request to remove python3-inflect which isn't installed dpkg: warning: ignoring request to remove python3-ipdb which isn't installed dpkg: warning: ignoring request to remove python3-ipython which isn't installed dpkg: warning: ignoring request to remove python3-isodate which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.context which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.functools which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.text which isn't installed dpkg: warning: ignoring request to remove python3-jedi which isn't installed dpkg: warning: ignoring request to remove python3-jmespath which isn't installed Purging configuration files for python3-jsonschema (4.19.2-6) ... dpkg: warning: ignoring request to remove python3-jsonschema-specifications which isn't installed dpkg: warning: ignoring request to remove python3-kiwisolver which isn't installed dpkg: warning: ignoring request to remove python3-lxml which isn't installed dpkg: warning: ignoring request to remove python3-lz4 which isn't installed dpkg: warning: ignoring request to remove python3-matplotlib which isn't installed dpkg: warning: ignoring request to remove python3-matplotlib-inline which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-more-itertools which isn't installed dpkg: warning: ignoring request to remove python3-mpmath which isn't installed dpkg: warning: ignoring request to remove python3-networkx which isn't installed Purging configuration files for python3-numpy (1:2.2.4+ds-1.2) ... dpkg: warning: ignoring request to remove python3-numpy-dev which isn't installed dpkg: warning: ignoring request to remove python3-packaging which isn't installed dpkg: warning: ignoring request to remove python3-pandas which isn't installed dpkg: warning: ignoring request to remove python3-pandas-lib which isn't installed dpkg: warning: ignoring request to remove python3-parso which isn't installed dpkg: warning: ignoring request to remove python3-pexpect which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-pil.imagetk which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-platformdirs which isn't installed dpkg: warning: ignoring request to remove python3-prompt-toolkit which isn't installed dpkg: warning: ignoring request to remove python3-ptyprocess which isn't installed dpkg: warning: ignoring request to remove python3-pure-eval which isn't installed dpkg: warning: ignoring request to remove python3-pyfaidx which isn't installed dpkg: warning: ignoring request to remove python3-pyfastx which isn't installed dpkg: warning: ignoring request to remove python3-pygments which isn't installed dpkg: warning: ignoring request to remove python3-pygtrie which isn't installed dpkg: warning: ignoring request to remove python3-pyparsing which isn't installed dpkg: warning: ignoring request to remove python3-pytz which isn't installed dpkg: warning: ignoring request to remove python3-referencing which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-requests which isn't installed dpkg: warning: ignoring request to remove python3-rlpycairo which isn't installed dpkg: warning: ignoring request to remove python3-rpds-py which isn't installed dpkg: warning: ignoring request to remove python3-s3transfer which isn't installed dpkg: warning: ignoring request to remove python3-schedule which isn't installed dpkg: warning: ignoring request to remove python3-scipy which isn't installed dpkg: warning: ignoring request to remove python3-seaborn which isn't installed dpkg: warning: ignoring request to remove python3-setuptools which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-stack-data which isn't installed Purging configuration files for python3-sympy (1.14.0-2) ... dpkg: warning: ignoring request to remove python3-tk which isn't installed dpkg: warning: ignoring request to remove python3-traitlets which isn't installed dpkg: warning: ignoring request to remove python3-treetime which isn't installed dpkg: warning: ignoring request to remove python3-typeguard which isn't installed dpkg: warning: ignoring request to remove python3-typeshed which isn't installed dpkg: warning: ignoring request to remove python3-typing-extensions which isn't installed dpkg: warning: ignoring request to remove python3-ufolib2 which isn't installed dpkg: warning: ignoring request to remove python3-unicodedata2 which isn't installed dpkg: warning: ignoring request to remove python3-urllib3 which isn't installed dpkg: warning: ignoring request to remove python3-wcwidth which isn't installed dpkg: warning: ignoring request to remove python3-xopen which isn't installed dpkg: warning: ignoring request to remove python3-zipp which isn't installed dpkg: warning: ignoring request to remove python3-zopfli which isn't installed dpkg: warning: ignoring request to remove python3-zstandard which isn't installed dpkg: warning: ignoring request to remove python3.13 which isn't installed Purging configuration files for python3.13-minimal (3.13.7-1) ... dpkg: warning: ignoring request to remove python3.13-tk which isn't installed dpkg: warning: ignoring request to remove raxml which isn't installed Purging configuration files for readline-common (8.3-3) ... dpkg: warning: ignoring request to remove seqmagick which isn't installed Purging configuration files for sgml-base (1.31+nmu1) ... dpkg: warning: ignoring request to remove tk8.6-blt2.5 which isn't installed dpkg: warning: ignoring request to remove unicode-data which isn't installed dpkg: warning: ignoring request to remove vcftools which isn't installed Purging configuration files for w3c-sgml-lib (1.3-3) ... Purging configuration files for x11-common (1:7.7+25) ... 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) ... 1m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg', '--purge', 'blt', 'ca-certificates', 'fasttree', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'libabsl20240722:amd64', 'libamd3:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcamd3:amd64', 'libccolamd3:amd64', 'libcholmod5:amd64', 'libcolamd3:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libdsdp-5.8t64', 'libexpat1:amd64', 'libffi8:amd64', 'libfftw3-double3:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgav1-1:amd64', 'libgcrypt20:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libglpk40:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libharfbuzz0b:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblerc4:amd64', 'libltdl7:amd64', 'libncursesw6:amd64', 'libopenjp2-7:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.7:amd64', 'libreadline8t64:amd64', 'libsharpyuv0:amd64', 'libsuitesparseconfig7:amd64', 'libsvtav1enc2:amd64', 'libtcl8.6:amd64', 'libtiff6:amd64', 'libtk8.6:amd64', 'libumfpack6: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', 'libxft2:amd64', 'libxml2-16:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyuv0:amd64', 'libzopfli1', 'mafft', 'media-types', 'netbase', 'openssl', 'perl', 'perl-modules-5.40', 'pigz', 'python-matplotlib-data', 'python3', 'python3-asttokens', 'python3-attr', 'python3-autocommand', 'python3-bcbio-gff', 'python3-biopython', 'python3-boto3', 'python3-botocore', 'python3-brotli', 'python3-cairo', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cvxopt', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-executing', 'python3-fonttools', 'python3-freetype', 'python3-fs', 'python3-idna', 'python3-inflect', 'python3-ipdb', 'python3-ipython', 'python3-isodate', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-jaraco.text', 'python3-jedi', 'python3-jmespath', 'python3-jsonschema', 'python3-jsonschema-specifications', 'python3-kiwisolver', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-matplotlib-inline', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-networkx', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-parso', 'python3-pexpect', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-platformdirs', 'python3-prompt-toolkit', 'python3-ptyprocess', 'python3-pure-eval', 'python3-pyfaidx', 'python3-pyfastx', 'python3-pygments', 'python3-pygtrie', 'python3-pyparsing', 'python3-pytz', 'python3-referencing', 'python3-reportlab', 'python3-requests', 'python3-rlpycairo', 'python3-rpds-py', 'python3-s3transfer', 'python3-schedule', 'python3-scipy', 'python3-seaborn', 'python3-setuptools', 'python3-six', 'python3-stack-data', 'python3-sympy', 'python3-tk:amd64', 'python3-traitlets', 'python3-treetime', 'python3-typeguard', 'python3-typeshed', 'python3-typing-extensions', 'python3-ufolib2', 'python3-unicodedata2', 'python3-urllib3', 'python3-wcwidth', 'python3-xopen', 'python3-zipp', 'python3-zopfli', 'python3-zstandard', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'raxml', 'readline-common', 'seqmagick', 'sgml-base', 'tk8.6-blt2.5', 'unicode-data', 'vcftools', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 1m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg', '--purge', 'augur'] 1m38.1s DUMP: dpkg: warning: ignoring request to remove augur which isn't installed 1m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg', '--purge', 'augur'] 1m38.1s INFO: Running scripts post_purge 1m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_purge_exceptions'] 1m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_purge_exceptions'] 1m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg', '--purge', '--pending'] 1m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg', '--purge', '--pending'] 1m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg', '--remove', '--pending'] 1m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg', '--remove', '--pending'] 1m38.1s INFO: Running scripts post_test 1m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_test_exceptions'] 1m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'tmp/scripts/post_test_exceptions'] 1m38.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m38.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m38.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg-divert', '--list'] 1m38.3s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged 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 /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 1m38.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'dpkg-divert', '--list'] 1m38.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', 'clean'] 1m38.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpeokaauip', 'apt-get', 'clean'] 1m38.4s DEBUG: Recording chroot state 1m39.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/shm'] 1m39.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/shm'] 1m39.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/console'] 1m39.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/console'] 1m39.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/ptmx'] 1m39.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/ptmx'] 1m39.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/pts'] 1m39.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/dev/pts'] 1m39.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/proc'] 1m39.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpeokaauip/proc'] 1m39.0s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m39.1s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpeokaauip'] 1m39.1s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpeokaauip 1m39.1s INFO: PASS: Upgrading between Debian distributions. 1m39.1s INFO: PASS: All tests. 1m39.1s INFO: piuparts run ends. ret=0 End: 2025-09-15 21:11:33 GMT