Start: 2025-12-13 14:48:36 GMT Package: ariba Version: 2.14.7+ds-10 Installed-Size: 20588 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq, python3 (<< 3.15), python3 (>= 3.13~), python3-biopython, python3-bs4 (>= 4.1.0), python3-dendropy, python3-matplotlib, python3-pymummer, python3-pysam, python3:any, libc6 (>= 2.14), libfml0 (>= 0.1), libgcc-s1 (>= 3.0), libminimap0 (>= 0.2), libstdc++6 (>= 13.1), zlib1g (>= 1:1.1.4), bowtie2, cd-hit, mash, mummer, python3-pkg-resources, python3-tk Suggests: spades Description: Antibiotic Resistance Identification By Assembly Homepage: https://github.com/sanger-pathogens/ariba Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.14.7+ds-10_amd64.deb Size: 1958380 MD5sum: cb4e6b49f2a3841dccbd472ec37f93cf SHA256: 2cda20680fdb7917486df215f8be85bf87ccf9ef01773e85a4b8fa027624d586 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/bin/piuparts --install-remove-install --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-others --scriptsdir /etc/piuparts/scripts-leftovers --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt ariba=2.14.7+ds-10 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 --install-remove-install --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-others --scriptsdir /etc/piuparts/scripts-leftovers --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt ariba=2.14.7+ds-10 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 6.1.0-41-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.158-1 (2025-11-09) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpmduvj11u 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpmduvj11u 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/proc'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/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/tmpmduvj11u/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/tmpmduvj11u/dev/pts'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/ptmx'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/ptmx'] 0m0.2s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/console'] 0m0.2s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/console'] 0m0.2s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/shm'] 0m0.2s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/shm'] 0m0.2s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid 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/tmpmduvj11u/tmp/scripts/ 0m0.2s DEBUG: Copying scriptsdir /etc/piuparts/scripts-leftovers to /srv/piuparts.debian.org/tmp/tmpmduvj11u/tmp/scripts/ 0m0.2s INFO: Running scripts post_chroot_unpack 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'update'] 0m2.7s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [176 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 [7448 kB] Fetched 17.8 MB in 2s (8948 kB/s) Reading package lists... 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'update'] 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-yf', 'dist-upgrade'] 0m4.3s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: libc-bin libc-gconv-modules-extra libc6 sqv tzdata 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 4596 kB of archives. After this operation, 26.6 kB disk space will be freed. Get:1 http://deb.debian.org/debian sid/main amd64 libc-gconv-modules-extra amd64 2.42-6 [1123 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.42-6 [1889 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.42-6 [674 kB] Get:4 http://deb.debian.org/debian sid/main amd64 sqv amd64 1.3.0-5 [648 kB] Get:5 http://deb.debian.org/debian sid/main amd64 tzdata all 2025c-1 [263 kB] Preconfiguring packages ... Fetched 4596 kB in 1s (7928 kB/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 ... 4891 files and directories currently installed.) Preparing to unpack .../libc-gconv-modules-extra_2.42-6_amd64.deb ... Unpacking libc-gconv-modules-extra:amd64 (2.42-6) over (2.42-5) ... Setting up libc-gconv-modules-extra:amd64 (2.42-6) ... (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 ... 4891 files and directories currently installed.) Preparing to unpack .../libc6_2.42-6_amd64.deb ... Unpacking libc6:amd64 (2.42-6) over (2.42-5) ... Setting up libc6:amd64 (2.42-6) ... (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 ... 4891 files and directories currently installed.) Preparing to unpack .../libc-bin_2.42-6_amd64.deb ... Unpacking libc-bin (2.42-6) over (2.42-5) ... Setting up libc-bin (2.42-6) ... (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 ... 4891 files and directories currently installed.) Preparing to unpack .../archives/sqv_1.3.0-5_amd64.deb ... Unpacking sqv (1.3.0-5) over (1.3.0-4) ... Setting up sqv (1.3.0-5) ... (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 ... 4891 files and directories currently installed.) Preparing to unpack .../tzdata_2025c-1_all.deb ... Unpacking tzdata (2025c-1) over (2025b-5) ... Setting up tzdata (2025c-1) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Dec 13 14:48:40 UTC 2025. Universal Time is now: Sat Dec 13 14:48:40 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-yf', 'dist-upgrade'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.5s DUMP: ccd559f5f7937b4c4df7db70fc624f5c - 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.5s INFO: Running scripts post_setup 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', '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/tmpmduvj11u', 'tmp/scripts/post_setup_dummy_users'] 0m5.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_fake-essential'] 0m6.2s DUMP: *** Adding fake essential packages *** Reading package lists... Building dependency tree... Reading state information... init-system-helpers is already the newest version (1.69). Solving dependencies... The following additional packages will be installed: libncursesw6 libproc2-0 libtext-charwidth-perl libtext-wrapi18n-perl procps sensible-utils ucf Suggested packages: dbconfig-mysql | dbconfig-pgsql | dbconfig-sqlite3 | dbconfig-no-thanks Recommended packages: libgpm2 psmisc linux-sysctl-defaults The following NEW packages will be installed: dbconfig-common libncursesw6 libproc2-0 libtext-charwidth-perl libtext-wrapi18n-perl procps sensible-utils ucf 0 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. Need to get 1777 kB of archives. After this operation, 4978 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.5+20251123-1 [136 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libproc2-0 amd64 2:4.0.4-9 [65.6 kB] Get:3 http://deb.debian.org/debian sid/main amd64 procps amd64 2:4.0.4-9 [882 kB] Get:4 http://deb.debian.org/debian sid/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libtext-charwidth-perl amd64 0.04-11+b4 [9476 B] Get:6 http://deb.debian.org/debian sid/main amd64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get:7 http://deb.debian.org/debian sid/main amd64 ucf all 3.0052 [43.3 kB] Get:8 http://deb.debian.org/debian sid/main amd64 dbconfig-common all 2.0.25 [604 kB] Preconfiguring packages ... Fetched 1777 kB in 0s (3614 kB/s) Selecting previously unselected package libncursesw6: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 ... 4891 files and directories currently installed.) Preparing to unpack .../0-libncursesw6_6.5+20251123-1_amd64.deb ... Unpacking libncursesw6:amd64 (6.5+20251123-1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../1-libproc2-0_2%3a4.0.4-9_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-9) ... Selecting previously unselected package procps. Preparing to unpack .../2-procps_2%3a4.0.4-9_amd64.deb ... Unpacking procps (2:4.0.4-9) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../3-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libtext-charwidth-perl:amd64. Preparing to unpack .../4-libtext-charwidth-perl_0.04-11+b4_amd64.deb ... Unpacking libtext-charwidth-perl:amd64 (0.04-11+b4) ... Selecting previously unselected package libtext-wrapi18n-perl. Preparing to unpack .../5-libtext-wrapi18n-perl_0.06-10_all.deb ... Unpacking libtext-wrapi18n-perl (0.06-10) ... Selecting previously unselected package ucf. Preparing to unpack .../6-ucf_3.0052_all.deb ... Moving old data out of the way Unpacking ucf (3.0052) ... Selecting previously unselected package dbconfig-common. Preparing to unpack .../7-dbconfig-common_2.0.25_all.deb ... Unpacking dbconfig-common (2.0.25) ... Setting up libtext-charwidth-perl:amd64 (0.04-11+b4) ... Setting up libtext-wrapi18n-perl (0.06-10) ... Setting up libproc2-0:amd64 (2:4.0.4-9) ... Setting up libncursesw6:amd64 (6.5+20251123-1) ... Setting up sensible-utils (0.0.26) ... Setting up procps (2:4.0.4-9) ... Setting up ucf (3.0052) ... Setting up dbconfig-common (2.0.25) ... Creating config file /etc/dbconfig-common/config with new version Processing triggers for libc-bin (2.42-6) ... 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_fake-essential'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_forbid_home'] 0m6.2s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_forbid_home'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.2s 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' 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_minimize'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_minimize'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_zz_backports'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_setup_zz_backports'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'clean'] 0m6.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'clean'] 0m6.3s DEBUG: Recording chroot state 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.5s DUMP: install ok installed apt apt 3.1.12 install ok installed base-files base-files 14 install ok installed base-passwd base-passwd 3.6.8 install ok installed bash bash 5.3-1 install ok installed bsdutils bsdutils 1:2.41.2-4 install ok installed coreutils coreutils 9.7-3 install ok installed dash dash 0.5.12-12 install ok installed dbconfig-common dbconfig-common 2.0.25 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 1:3.12-1 install ok installed dpkg dpkg 1.22.21 install ok installed findutils findutils 4.10.0-3 install ok installed gcc-15-base:amd64 gcc-15-base 15.2.0-11 install ok installed grep grep 3.12-1 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 3.1.12 install ok installed libattr1:amd64 libattr1 1:2.5.2-3 install ok installed libaudit-common libaudit-common 1:4.1.2-1 install ok installed libaudit1:amd64 libaudit1 1:4.1.2-1+b1 install ok installed libblkid1:amd64 libblkid1 2.41.2-4 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 2.42-6 install ok installed libc-gconv-modules-extra:amd64 libc-gconv-modules-extra 2.42-6 install ok installed libc6:amd64 libc6 2.42-6 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4+b2 install ok installed libcap2:amd64 libcap2 1:2.75-10+b2 install ok installed libcrypt1:amd64 libcrypt1 1:4.5.1-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-11 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.282+b2 install ok installed libgcc-s1:amd64 libgcc-s1 15.2.0-11 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.2-1 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-6 install ok installed liblzma5:amd64 liblzma5 5.8.1-2 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libmount1:amd64 libmount1 2.41.2-4 install ok installed libncursesw6:amd64 libncursesw6 6.5+20251123-1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.2-1 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 libproc2-0:amd64 libproc2-0 2:4.0.4-9 install ok installed libseccomp2:amd64 libseccomp2 2.6.0-2+b1 install ok installed libselinux1:amd64 libselinux1 3.9-4+b1 install ok installed libsemanage-common libsemanage-common 3.9-1 install ok installed libsemanage2:amd64 libsemanage2 3.9-1+b1 install ok installed libsepol2:amd64 libsepol2 3.9-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.41.2-4 install ok installed libssl3t64:amd64 libssl3t64 3.5.4-1 install ok installed libstdc++6:amd64 libstdc++6 15.2.0-11 install ok installed libsystemd0:amd64 libsystemd0 259~rc3-1 install ok installed libtext-charwidth-perl:amd64 libtext-charwidth-perl 0.04-11+b4 install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-10 install ok installed libtinfo6:amd64 libtinfo6 6.5+20251123-1 install ok installed libudev1:amd64 libudev1 259~rc3-1 install ok installed libuuid1:amd64 libuuid1 2.41.2-4 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-2 install ok installed login login 1:4.16.0-2+really2.41.2-4 install ok installed login.defs login.defs 1:4.18.0-2 install ok installed mawk mawk 1.3.4.20250131-1 install ok installed mount mount 2.41.2-4 install ok installed ncurses-base ncurses-base 6.5+20251123-1 install ok installed ncurses-bin ncurses-bin 6.5+20251123-1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.5.4-1 install ok installed passwd passwd 1:4.18.0-2 install ok installed perl-base perl-base 5.40.1-7 install ok installed procps procps 2:4.0.4-9 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.26 install ok installed sqv sqv 1.3.0-5 install ok installed sysvinit-utils sysvinit-utils 3.15-6 install ok installed tar tar 1.35+dfsg-3.1 install ok installed tzdata tzdata 2025c-1 install ok installed ucf ucf 3.0052 install ok installed util-linux util-linux 2.41.2-4 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1+b1 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-divert', '--list'] 0m6.5s 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 0m6.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-divert', '--list'] 0m6.5s INFO: Running scripts is_testable 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/is_testable_uninstallable'] 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/is_testable_uninstallable'] 0m6.6s INFO: apt-cache does not know about any of the requested packages 0m6.6s INFO: Running scripts pre_test 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_test_exceptions'] 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_test_exceptions'] 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_test_root_password'] 0m6.6s DUMP: New password: Retype new password: passwd: password updated successfully 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_test_root_password'] 0m6.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 0m6.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 0m7.0s DEBUG: No broken symlinks as far as we can find. 0m7.0s INFO: Running scripts pre_install 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_database-server'] 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_database-server'] 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_exceptions'] 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_exceptions'] 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_extras'] 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_extras'] 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'show', '--no-all-versions', 'ariba=2.14.7+ds-10'] 0m7.5s DUMP: Package: ariba Version: 2.14.7+ds-10 Installed-Size: 20588 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq, python3 (<< 3.15), python3 (>= 3.13~), python3-biopython, python3-bs4 (>= 4.1.0), python3-dendropy, python3-matplotlib, python3-pymummer, python3-pysam, python3:any, libc6 (>= 2.14), libfml0 (>= 0.1), libgcc-s1 (>= 3.0), libminimap0 (>= 0.2), libstdc++6 (>= 13.1), zlib1g (>= 1:1.1.4), bowtie2, cd-hit, mash, mummer, python3-pkg-resources, python3-tk Suggests: spades Description-en: Antibiotic Resistance Identification By Assembly ARIBA is a tool that identifies antibiotic resistance genes by running local assemblies. The input is a FASTA file of reference genes and paired sequencing reads. ARIBA reports which of the reference genes were found, plus detailed information on the quality of the assemblies and any variants between the sequencing reads and the reference genes. Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Homepage: https://github.com/sanger-pathogens/ariba Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.14.7+ds-10_amd64.deb Size: 1958380 MD5sum: cb4e6b49f2a3841dccbd472ec37f93cf SHA256: 2cda20680fdb7917486df215f8be85bf87ccf9ef01773e85a4b8fa027624d586 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'show', '--no-all-versions', 'ariba=2.14.7+ds-10'] 0m7.5s DEBUG: metapackage: Package: piuparts-depends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: piuparts developers team Depends: fastaq, python3 (<< 3.15), python3 (>= 3.13~), python3-biopython, python3-bs4 (>= 4.1.0), python3-dendropy, python3-matplotlib, python3-pymummer, python3-pysam, python3:any, libc6 (>= 2.14), libfml0 (>= 0.1), libgcc-s1 (>= 3.0), libminimap0 (>= 0.2), libstdc++6 (>= 13.1), zlib1g (>= 1:1.1.4), bowtie2, cd-hit, mash, mummer, python3-pkg-resources, python3-tk Description: Dummy package to satisfy dependencies - created by piuparts This package was created automatically by piuparts and can safely be removed 0m7.5s DEBUG: Starting command: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmpp18xwwxq/piuparts-depends-dummy'] 0m7.6s DUMP: dpkg-deb: warning: not checking contents of control area dpkg-deb: building an unknown package in '/srv/piuparts.debian.org/tmp/tmpp18xwwxq/piuparts-depends-dummy.deb'. 0m7.6s DEBUG: Command ok: ['dpkg-deb', '-b', '-Zgzip', '--nocheck', '/srv/piuparts.debian.org/tmp/tmpp18xwwxq/piuparts-depends-dummy'] 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt'] 0m7.6s DUMP: 3.1.12 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-query', '-f', '${Version}\n', '-W', 'apt'] 0m7.6s DEBUG: Copying /srv/piuparts.debian.org/tmp/tmpp18xwwxq/piuparts-depends-dummy.deb to /srv/piuparts.debian.org/tmp/tmpmduvj11u/tmp 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-y', '--allow-downgrades', 'install', './tmp/piuparts-depends-dummy.deb'] 0m46.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following additional packages will be installed: bowtie2 cd-hit fastaq fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-urw-base35 gawk libabsl20240722 libaom3 libatomic1 libavif16 libblas3 libbrotli1 libcairo2 libcapnp-1.1.0 libcom-err2 libcurl3t64-gnutls libdav1d7 libdeflate0 libexpat1 libffi8 libfml0 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgav1-1 libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgnutls30t64 libgomp1 libgpg-error0 libgraphite2-3 libgsl28 libgslcblas0 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libidn2-0 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libminimap0 libmpfr6 libmurmurhash2 libncurses6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libopenjp2-7 libp11-kit0 libperl5.40 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.8 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsqlite3-0 libssh2-1t64 libsvtav1enc2 libtasn1-6 libtcl8.6 libtiff6 libtk8.6 libunistring5 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxrender1 libxslt1.1 libxss1 libyuv0 libzopfli1 mash media-types mummer netbase perl perl-modules-5.40 python-matplotlib-data python3 python3-attr python3-autocommand python3-biopython python3-brotli python3-bs4 python3-cairo python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-dendropy python3-fonttools python3-freetype python3-fs python3-inflect python3-jaraco.context python3-jaraco.functools python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-munkres python3-numpy python3-numpy-dev python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-platformdirs python3-pymummer python3-pyparsing python3-pysam python3-reportlab python3-rlpycairo python3-soupsieve python3-sympy python3-tk python3-typeguard python3-typing-extensions python3-ufolib2 python3-unicodedata2 python3-zopfli python3.13 python3.13-minimal python3.13-tk python3.14-tk readline-common samtools sgml-base unicode-data w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core Suggested packages: bowtie2-examples fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre gawk-doc rng-tools gdbm-l10n low-memory-monitor gnutls-bin gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html krb5-doc krb5-user liblcms2-utils tcl8.6 tk8.6 perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-venv python-attr-doc bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons python3-mysqldb python3-mmtf python3-rdflib python3-psycopg2 python3-scipy python3-igraph raxml t-coffee wise python-charset-normalizer-doc python-cycler-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-pil-doc python3-setuptools python-pyparsing-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm texlive-fonts-extra python-sympy-doc blt tix python3.13-venv python3.13-doc binutils binfmt-support readline-doc cwltool sgml-base-doc debhelper Recommended packages: ca-certificates libglib2.0-data shared-mime-info xdg-user-dirs libgpg-error-l10n krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules python-biopython-doc ncbi-blast+ python3-cssselect python3-html5lib python3-olefile fonts-dejavu-extra isympy-common The following NEW packages will be installed: bowtie2 cd-hit fastaq fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-urw-base35 gawk libabsl20240722 libaom3 libatomic1 libavif16 libblas3 libbrotli1 libcairo2 libcapnp-1.1.0 libcom-err2 libcurl3t64-gnutls libdav1d7 libdeflate0 libexpat1 libffi8 libfml0 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgav1-1 libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgnutls30t64 libgomp1 libgpg-error0 libgraphite2-3 libgsl28 libgslcblas0 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libidn2-0 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libminimap0 libmpfr6 libmurmurhash2 libncurses6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libopenjp2-7 libp11-kit0 libperl5.40 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.8 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsqlite3-0 libssh2-1t64 libsvtav1enc2 libtasn1-6 libtcl8.6 libtiff6 libtk8.6 libunistring5 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxrender1 libxslt1.1 libxss1 libyuv0 libzopfli1 mash media-types mummer netbase perl perl-modules-5.40 piuparts-depends-dummy python-matplotlib-data python3 python3-attr python3-autocommand python3-biopython python3-brotli python3-bs4 python3-cairo python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-dendropy python3-fonttools python3-freetype python3-fs python3-inflect python3-jaraco.context python3-jaraco.functools python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-munkres python3-numpy python3-numpy-dev python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-platformdirs python3-pymummer python3-pyparsing python3-pysam python3-reportlab python3-rlpycairo python3-soupsieve python3-sympy python3-tk python3-typeguard python3-typing-extensions python3-ufolib2 python3-unicodedata2 python3-zopfli python3.13 python3.13-minimal python3.13-tk python3.14-tk readline-common samtools sgml-base unicode-data w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 174 newly installed, 0 to remove and 0 not upgraded. Need to get 127 MB/127 MB of archives. After this operation, 498 MB of additional disk space will be used. Get:1 /tmp/piuparts-depends-dummy.deb piuparts-depends-dummy amd64 0.invalid.0 [800 B] Get:2 http://deb.debian.org/debian sid/main amd64 libmpfr6 amd64 4.2.2-2 [742 kB] Get:3 http://deb.debian.org/debian sid/main amd64 readline-common all 8.3-3 [74.8 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libreadline8t64 amd64 8.3-3 [191 kB] Get:5 http://deb.debian.org/debian sid/main amd64 gawk amd64 1:5.3.2-1 [772 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.7.3-1 [112 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libpython3.13-minimal amd64 3.13.11-1+b1 [866 kB] Get:8 http://deb.debian.org/debian sid/main amd64 python3.13-minimal amd64 3.13.11-1+b1 [2254 kB] Get:9 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.13.9-2 [27.5 kB] Get:10 http://deb.debian.org/debian sid/main amd64 media-types all 14.0.0 [30.8 kB] Get:11 http://deb.debian.org/debian sid/main amd64 netbase all 6.5 [12.4 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.5.2-3 [26.1 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.46.1-8 [968 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libpython3.13-stdlib amd64 3.13.11-1+b1 [1968 kB] Get:15 http://deb.debian.org/debian sid/main amd64 python3.13 amd64 3.13.11-1+b1 [770 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.13.9-2 [10.5 kB] Get:17 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.13.9-2 [27.5 kB] Get:18 http://deb.debian.org/debian sid/main amd64 python3-numpy-dev amd64 1:2.3.5+ds-2+b1 [139 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.12.1-7 [215 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 15.2.0-11 [862 kB] Get:21 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.12.1-7 [2785 kB] Get:22 http://deb.debian.org/debian sid/main amd64 python3-numpy amd64 1:2.3.5+ds-2+b1 [7491 kB] Get:23 http://deb.debian.org/debian sid/main amd64 perl-modules-5.40 all 5.40.1-7 [3012 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libgdbm6t64 amd64 1.26-1 [78.5 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libgdbm-compat4t64 amd64 1.26-1 [52.8 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libperl5.40 amd64 5.40.1-7 [4317 kB] Get:27 http://deb.debian.org/debian sid/main amd64 perl amd64 5.40.1-7 [267 kB] Get:28 http://deb.debian.org/debian sid/main amd64 bowtie2 amd64 2.5.4-1+b2 [1505 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 15.2.0-11 [140 kB] Get:30 http://deb.debian.org/debian sid/main amd64 cd-hit amd64 4.8.1-4 [522 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libnghttp3-9 amd64 1.12.0-1 [68.4 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libngtcp2-16 amd64 1.16.0-1 [136 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2+b9 [304 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.25.10-1 [444 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libgnutls30t64 amd64 3.8.11-3 [1509 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.22.1-2 [33.1 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.2-3+b4 [25.1 kB] Get:41 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.22.1-2 [81.1 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get:43 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.22.1-2 [337 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.22.1-2 [139 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-10 [19.8 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-10 [57.8 kB] Get:47 http://deb.debian.org/debian sid/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get:48 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get:49 http://deb.debian.org/debian sid/main amd64 libngtcp2-crypto-gnutls8 amd64 1.16.0-1 [25.2 kB] Get:50 http://deb.debian.org/debian sid/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get:51 http://deb.debian.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get:52 http://deb.debian.org/debian sid/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libcurl3t64-gnutls amd64 8.17.0-3 [401 kB] Get:54 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get:55 http://deb.debian.org/debian sid/main amd64 libhtscodecs2 amd64 1.6.1-2 [95.8 kB] Get:56 http://deb.debian.org/debian sid/main amd64 libhts3t64 amd64 1.22.1+ds2-1 [499 kB] Get:57 http://deb.debian.org/debian sid/main amd64 libncurses6 amd64 6.5+20251123-1 [107 kB] Get:58 http://deb.debian.org/debian sid/main amd64 samtools amd64 1.22.1-1 [697 kB] Get:59 http://deb.debian.org/debian sid/main amd64 fastaq all 3.17.0-9 [47.8 kB] Get:60 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:61 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:62 http://deb.debian.org/debian sid/main amd64 libfontenc1 amd64 1:1.1.8-1+b2 [23.3 kB] Get:63 http://deb.debian.org/debian sid/main amd64 libpng16-16t64 amd64 1.6.53-1 [288 kB] Get:64 http://deb.debian.org/debian sid/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get:65 http://deb.debian.org/debian sid/main amd64 x11-common all 1:7.7+26 [217 kB] Get:66 http://deb.debian.org/debian sid/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get:67 http://deb.debian.org/debian sid/main amd64 xfonts-utils amd64 1:7.7+7 [93.3 kB] Get:68 http://deb.debian.org/debian sid/main amd64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get:69 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.15.0-2.4 [318 kB] Get:70 http://deb.debian.org/debian sid/main amd64 fonts-lyx all 2.4.4-2 [190 kB] Get:71 http://deb.debian.org/debian sid/main amd64 libabsl20240722 amd64 20240722.0-4 [492 kB] Get:72 http://deb.debian.org/debian sid/main amd64 libaom3 amd64 3.13.1-2 [1906 kB] Get:73 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 15.2.0-11 [9532 B] Get:74 http://deb.debian.org/debian sid/main amd64 libdav1d7 amd64 1.5.2-1 [564 kB] Get:75 http://deb.debian.org/debian sid/main amd64 libgav1-1 amd64 0.19.0-3+b1 [353 kB] Get:76 http://deb.debian.org/debian sid/main amd64 librav1e0.8 amd64 0.8.1-6 [978 kB] Get:77 http://deb.debian.org/debian sid/main amd64 libsvtav1enc2 amd64 2.3.0+dfsg-1 [2489 kB] Get:78 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.1.5-4 [168 kB] Get:79 http://deb.debian.org/debian sid/main amd64 libyuv0 amd64 0.0.1922.20251210-1 [175 kB] Get:80 http://deb.debian.org/debian sid/main amd64 libavif16 amd64 1.3.0-1+b1 [137 kB] Get:81 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.15.0-2.4 [401 kB] Get:82 http://deb.debian.org/debian sid/main amd64 libpixman-1-0 amd64 0.46.4-1 [259 kB] Get:83 http://deb.debian.org/debian sid/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get:84 http://deb.debian.org/debian sid/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get:85 http://deb.debian.org/debian sid/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get:86 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.12-1 [343 kB] Get:87 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB] Get:88 http://deb.debian.org/debian sid/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get:89 http://deb.debian.org/debian sid/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get:90 http://deb.debian.org/debian sid/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get:91 http://deb.debian.org/debian sid/main amd64 libxrender1 amd64 1:0.9.12-1 [27.9 kB] Get:92 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.4-1+b1 [538 kB] Get:93 http://deb.debian.org/debian sid/main amd64 libcapnp-1.1.0 amd64 1.1.0-2.1 [1494 kB] Get:94 http://deb.debian.org/debian sid/main amd64 libfml0 amd64 0.1+git20221215.85f159e-1 [70.1 kB] Get:95 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.16-4 [26.7 kB] Get:96 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.56-2 [89.1 kB] Get:97 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.11.2-3 [871 kB] Get:98 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.86.3-1 [1547 kB] Get:99 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-11 [76.7 kB] Get:100 http://deb.debian.org/debian sid/main amd64 libgslcblas0 amd64 2.8+dfsg-5.1 [137 kB] Get:101 http://deb.debian.org/debian sid/main amd64 libgsl28 amd64 2.8+dfsg-5.1 [1068 kB] Get:102 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 12.1.0-1 [530 kB] Get:103 http://deb.debian.org/debian sid/main amd64 libimagequant0 amd64 4.4.0-3 [251 kB] Get:104 http://deb.debian.org/debian sid/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get:105 http://deb.debian.org/debian sid/main amd64 liblcms2-2 amd64 2.17-1 [163 kB] Get:106 http://deb.debian.org/debian sid/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get:107 http://deb.debian.org/debian sid/main amd64 libminimap0 amd64 0.2-8+b3 [22.7 kB] Get:108 http://deb.debian.org/debian sid/main amd64 libmurmurhash2 amd64 1.6-1+b1 [6180 B] Get:109 http://deb.debian.org/debian sid/main amd64 libopenjp2-7 amd64 2.5.3-2.1 [204 kB] Get:110 http://deb.debian.org/debian sid/main amd64 libqhull-r8.0 amd64 2020.2-7 [248 kB] Get:111 http://deb.debian.org/debian sid/main amd64 libraqm0 amd64 0.10.3-1 [14.0 kB] Get:112 http://deb.debian.org/debian sid/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB] Get:113 http://deb.debian.org/debian sid/main amd64 libtcl8.6 amd64 8.6.17+dfsg-1 [1041 kB] Get:114 http://deb.debian.org/debian sid/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB] Get:115 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.7.1-1 [361 kB] Get:116 http://deb.debian.org/debian sid/main amd64 libxft2 amd64 2.3.6-1+b4 [54.5 kB] Get:117 http://deb.debian.org/debian sid/main amd64 libxss1 amd64 1:1.2.3-1+b3 [17.0 kB] Get:118 http://deb.debian.org/debian sid/main amd64 libtk8.6 amd64 8.6.17-1 [794 kB] Get:119 http://deb.debian.org/debian sid/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [113 kB] Get:120 http://deb.debian.org/debian sid/main amd64 libwebpmux3 amd64 1.5.0-0.1 [126 kB] Get:121 http://deb.debian.org/debian sid/main amd64 libxml2-16 amd64 2.15.1+dfsg-2+b1 [641 kB] Get:122 http://deb.debian.org/debian sid/main amd64 libxslt1.1 amd64 1.1.43-0.3 [158 kB] Get:123 http://deb.debian.org/debian sid/main amd64 libzopfli1 amd64 1.0.3-3 [106 kB] Get:124 http://deb.debian.org/debian sid/main amd64 mash amd64 2.3+dfsg-6+b2 [192 kB] Get:125 http://deb.debian.org/debian sid/main amd64 mummer amd64 3.23+dfsg-8 [662 kB] Get:126 http://deb.debian.org/debian sid/main amd64 python-matplotlib-data all 3.10.7+dfsg1-1 [2737 kB] Get:127 http://deb.debian.org/debian sid/main amd64 python3-attr all 25.4.0-1 [73.1 kB] Get:128 http://deb.debian.org/debian sid/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get:129 http://deb.debian.org/debian sid/main amd64 python3-charset-normalizer amd64 3.4.4-2 [171 kB] Get:130 http://deb.debian.org/debian sid/main amd64 python3.13-tk amd64 3.13.11-1+b1 [108 kB] Get:131 http://deb.debian.org/debian sid/main amd64 python3.14-tk amd64 3.14.2-1+b1 [110 kB] Get:132 http://deb.debian.org/debian sid/main amd64 python3-tk amd64 3.13.9-2 [10.8 kB] Get:133 http://deb.debian.org/debian sid/main amd64 python3-pil.imagetk amd64 12.0.0-1+b1 [81.6 kB] Get:134 http://deb.debian.org/debian sid/main amd64 python3-pil amd64 12.0.0-1+b1 [551 kB] Get:135 http://deb.debian.org/debian sid/main amd64 python3-cairo amd64 1.27.0-2+b1 [132 kB] Get:136 http://deb.debian.org/debian sid/main amd64 python3-freetype all 2.5.1-2 [89.4 kB] Get:137 http://deb.debian.org/debian sid/main amd64 python3-rlpycairo all 0.3.0-4 [10.1 kB] Get:138 http://deb.debian.org/debian sid/main amd64 python3-reportlab all 4.4.5-1 [1171 kB] Get:139 http://deb.debian.org/debian sid/main amd64 sgml-base all 1.31+nmu1 [10.9 kB] Get:140 http://deb.debian.org/debian sid/main amd64 xml-core all 0.19 [20.1 kB] Get:141 http://deb.debian.org/debian sid/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get:142 http://deb.debian.org/debian sid/main amd64 python3-biopython amd64 1.86+dfsg-1+b1 [1632 kB] Get:143 http://deb.debian.org/debian sid/main amd64 python3-brotli amd64 1.1.0-2+b9 [309 kB] Get:144 http://deb.debian.org/debian sid/main amd64 python3-soupsieve all 2.7-2 [39.0 kB] Get:145 http://deb.debian.org/debian sid/main amd64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get:146 http://deb.debian.org/debian sid/main amd64 python3-bs4 all 4.14.3-1 [118 kB] Get:147 http://deb.debian.org/debian sid/main amd64 python3-contourpy amd64 1.3.3-1+b1 [295 kB] Get:148 http://deb.debian.org/debian sid/main amd64 python3-cycler all 0.12.1-2 [9616 B] Get:149 http://deb.debian.org/debian sid/main amd64 python3-dateutil all 2.9.0-4 [79.4 kB] Get:150 http://deb.debian.org/debian sid/main amd64 python3-dendropy all 4.6.1-2 [277 kB] Get:151 http://deb.debian.org/debian sid/main amd64 python3-platformdirs all 4.4.0-1 [16.7 kB] Get:152 http://deb.debian.org/debian sid/main amd64 python3-fs all 2.4.16-9 [95.5 kB] Get:153 http://deb.debian.org/debian sid/main amd64 python3-lxml amd64 6.0.2-1+b3 [2229 kB] Get:154 http://deb.debian.org/debian sid/main amd64 python3-lz4 amd64 4.4.5+dfsg-1 [26.0 kB] Get:155 http://deb.debian.org/debian sid/main amd64 python3-munkres all 1.1.4-3 [11.5 kB] Get:156 http://deb.debian.org/debian sid/main amd64 python3-mpmath all 1.3.0-2 [419 kB] Get:157 http://deb.debian.org/debian sid/main amd64 python3-sympy all 1.14.0-2 [4228 kB] Get:158 http://deb.debian.org/debian sid/main amd64 python3-ufolib2 all 0.17.1+dfsg1-1 [33.0 kB] Get:159 http://deb.debian.org/debian sid/main amd64 python3-unicodedata2 amd64 16.0.0+ds-1+b1 [324 kB] Get:160 http://deb.debian.org/debian sid/main amd64 python3-zopfli amd64 0.4.0-1 [10.5 kB] Get:161 http://deb.debian.org/debian sid/main amd64 unicode-data all 16.0.0-1 [9197 kB] Get:162 http://deb.debian.org/debian sid/main amd64 python3-fonttools amd64 4.57.0-3+b1 [1630 kB] Get:163 http://deb.debian.org/debian sid/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get:164 http://deb.debian.org/debian sid/main amd64 python3-typeguard all 4.4.4-1 [37.1 kB] Get:165 http://deb.debian.org/debian sid/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Get:166 http://deb.debian.org/debian sid/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Get:167 http://deb.debian.org/debian sid/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get:168 http://deb.debian.org/debian sid/main amd64 python3-kiwisolver amd64 1.4.10~rc0-1+b1 [73.0 kB] Get:169 http://deb.debian.org/debian sid/main amd64 python3-pyparsing all 3.1.3-1 [148 kB] Get:170 http://deb.debian.org/debian sid/main amd64 python3-packaging all 25.0-1 [56.6 kB] Get:171 http://deb.debian.org/debian sid/main amd64 python3-matplotlib amd64 3.10.7+dfsg1-1+b1 [22.8 MB] Get:172 http://deb.debian.org/debian sid/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get:173 http://deb.debian.org/debian sid/main amd64 python3-pymummer all 0.12.0-1 [14.2 kB] Get:174 http://deb.debian.org/debian sid/main amd64 python3-pysam amd64 0.23.3+ds-2+b1 [4456 kB] Preconfiguring packages ... Fetched 127 MB in 4s (35.2 MB/s) Selecting previously unselected package libmpfr6: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 ... 5430 files and directories currently installed.) Preparing to unpack .../libmpfr6_4.2.2-2_amd64.deb ... Unpacking libmpfr6:amd64 (4.2.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... 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Unpacking python3-cairo (1.27.0-2+b1) ... Selecting previously unselected package python3-freetype. Preparing to unpack .../119-python3-freetype_2.5.1-2_all.deb ... Unpacking python3-freetype (2.5.1-2) ... Selecting previously unselected package python3-rlpycairo. Preparing to unpack .../120-python3-rlpycairo_0.3.0-4_all.deb ... Unpacking python3-rlpycairo (0.3.0-4) ... Selecting previously unselected package python3-reportlab. Preparing to unpack .../121-python3-reportlab_4.4.5-1_all.deb ... Unpacking python3-reportlab (4.4.5-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../122-sgml-base_1.31+nmu1_all.deb ... Unpacking sgml-base (1.31+nmu1) ... Selecting previously unselected package xml-core. Preparing to unpack .../123-xml-core_0.19_all.deb ... Unpacking xml-core (0.19) ... Selecting previously unselected package w3c-sgml-lib. Preparing to unpack .../124-w3c-sgml-lib_1.3-3_all.deb ... Unpacking w3c-sgml-lib (1.3-3) ... Selecting previously unselected package python3-biopython. Preparing to unpack .../125-python3-biopython_1.86+dfsg-1+b1_amd64.deb ... Unpacking python3-biopython (1.86+dfsg-1+b1) ... Selecting previously unselected package python3-brotli. Preparing to unpack .../126-python3-brotli_1.1.0-2+b9_amd64.deb ... Unpacking python3-brotli (1.1.0-2+b9) ... Selecting previously unselected package python3-soupsieve. Preparing to unpack .../127-python3-soupsieve_2.7-2_all.deb ... Unpacking python3-soupsieve (2.7-2) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../128-python3-typing-extensions_4.15.0-1_all.deb ... Unpacking python3-typing-extensions (4.15.0-1) ... Selecting previously unselected package python3-bs4. Preparing to unpack .../129-python3-bs4_4.14.3-1_all.deb ... Unpacking python3-bs4 (4.14.3-1) ... Selecting previously unselected package python3-contourpy. Preparing to unpack .../130-python3-contourpy_1.3.3-1+b1_amd64.deb ... 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Setting up libgraphite2-3:amd64 (1.3.14-11) ... Setting up liblcms2-2:amd64 (2.17-1) ... Setting up libpixman-1-0:amd64 (0.46.4-1) ... Setting up libsharpyuv0:amd64 (1.5.0-0.1) ... Setting up libaom3:amd64 (3.13.1-2) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.5-1) ... Setting up libkeyutils1:amd64 (1.6.3-6) ... 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 (1.56-2) ... Setting up libgslcblas0:amd64 (2.8+dfsg-5.1) ... Setting up libgdbm-compat4t64:amd64 (1.26-1) ... Setting up libmurmurhash2:amd64 (1.6-1+b1) ... Setting up gawk (1:5.3.2-1) ... Setting up libxcb-render0:amd64 (1.17.0-2+b1) ... Setting up libxml2-16:amd64 (2.15.1+dfsg-2+b1) ... Setting up fonts-lyx (2.4.4-2) ... Setting up libbrotli1:amd64 (1.1.0-2+b9) ... Setting up libsqlite3-0:amd64 (3.46.1-8) ... Setting up x11-common (1:7.7+26) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Setting up libdeflate0:amd64 (1.23-2) ... Setting up libgcrypt20:amd64 (1.11.2-3) ... Setting up libqhull-r8.0:amd64 (2020.2-7) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libcom-err2:amd64 (1.47.2-3+b4) ... Setting up libgomp1:amd64 (15.2.0-11) ... Setting up libabsl20240722:amd64 (20240722.0-4) ... Setting up libfml0:amd64 (0.1+git20221215.85f159e-1) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libkrb5support0:amd64 (1.22.1-2) ... Setting up librav1e0.8:amd64 (0.8.1-6) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-10) ... Setting up unicode-data (16.0.0-1) ... Setting up libminimap0:amd64 (0.2-8+b3) ... 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 libncurses6:amd64 (6.5+20251123-1) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.16-4) ... Setting up libimagequant0:amd64 (4.4.0-3) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.53-1) ... Setting up python3-numpy-dev:amd64 (1:2.3.5+ds-2+b1) ... Setting up libatomic1:amd64 (15.2.0-11) ... 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 libk5crypto3:amd64 (1.22.1-2) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-10) ... Setting up libgfortran5:amd64 (15.2.0-11) ... Setting up libnghttp3-9:amd64 (1.12.0-1) ... Setting up libwebp7:amd64 (1.5.0-0.1) ... Setting up libffi8:amd64 (3.5.2-3) ... Setting up libdav1d7:amd64 (1.5.2-1) ... Setting up perl-modules-5.40 (5.40.1-7) ... Setting up libtiff6:amd64 (4.7.1-1) ... Setting up libxslt1.1:amd64 (1.1.43-0.3) ... Setting up libtasn1-6:amd64 (4.20.0-2) ... Setting up libopenjp2-7:amd64 (2.5.3-2.1) ... Setting up libx11-6:amd64 (2:1.8.12-1) ... Setting up netbase (6.5) ... Setting up libngtcp2-16:amd64 (1.16.0-1) ... Setting up sgml-base (1.31+nmu1) ... Setting up libcapnp-1.1.0:amd64 (1.1.0-2.1) ... Setting up libkrb5-3:amd64 (1.22.1-2) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libgsl28:amd64 (2.8+dfsg-5.1) ... Setting up python-matplotlib-data (3.10.7+dfsg1-1) ... Setting up libwebpmux3:amd64 (1.5.0-0.1) ... Setting up libyuv0:amd64 (0.0.1922.20251210-1) ... Setting up libpython3.13-stdlib:amd64 (3.13.11-1+b1) ... Setting up libldap2:amd64 (2.6.10+dfsg-1) ... Setting up libpython3-stdlib:amd64 (3.13.9-2) ... Setting up libavif16:amd64 (1.3.0-1+b1) ... 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 libxrender1:amd64 (1:0.9.12-1) ... Setting up python3.13 (3.13.11-1+b1) ... 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 python3 (3.13.9-2) ... Setting up libidn2-0:amd64 (2.3.8-4) ... Setting up python3-autocommand (2.2.2-3) ... Setting up python3-platformdirs (4.4.0-1) ... Setting up python3-zopfli (0.4.0-1) ... Setting up python3-fs (2.4.16-9) ... Setting up libperl5.40:amd64 (5.40.1-7) ... Setting up perl (5.40.1-7) ... Setting up libglib2.0-0t64:amd64 (2.86.3-1) ... No schema files found: doing nothing. Setting up python3-packaging (25.0-1) ... Setting up python3-pyparsing (3.1.3-1) ... Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up python3-brotli (1.1.0-2+b9) ... Setting up python3-cycler (0.12.1-2) ... Setting up libp11-kit0:amd64 (0.25.10-1) ... Setting up python3-kiwisolver (1.4.10~rc0-1+b1) ... Setting up libgssapi-krb5-2:amd64 (1.22.1-2) ... Setting up mash (2.3+dfsg-6+b2) ... Setting up python3-typing-extensions (4.15.0-1) ... Setting up python3-numpy (1:2.3.5+ds-2+b1) ... Setting up python3-lxml:amd64 (6.0.2-1+b3) ... Setting up xml-core (0.19) ... Setting up mummer (3.23+dfsg-8) ... Setting up python3-munkres (1.1.4-3) ... Setting up libharfbuzz0b:amd64 (12.1.0-1) ... Setting up python3-dateutil (2.9.0-4) ... Setting up python3-contourpy (1.3.3-1+b1) ... Setting up libxss1:amd64 (1:1.2.3-1+b3) ... Setting up libfontconfig1:amd64 (2.15.0-2.4) ... Setting up python3-mpmath (1.3.0-2) ... Setting up python3-dendropy (4.6.1-2) ... Setting up python3-soupsieve (2.7-2) ... Setting up cd-hit (4.8.1-4) ... Setting up libgnutls30t64:amd64 (3.8.11-3) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up python3-sympy (1.14.0-2) ... Setting up python3-attr (25.4.0-1) ... Setting up libxft2:amd64 (2.3.6-1+b4) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up python3-lz4 (4.4.5+dfsg-1) ... Setting up python3-charset-normalizer (3.4.4-2) ... Setting up python3-unicodedata2 (16.0.0+ds-1+b1) ... Setting up libtk8.6:amd64 (8.6.17-1) ... Setting up python3-typeguard (4.4.4-1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up python3-freetype (2.5.1-2) ... Setting up xfonts-utils (1:7.7+7) ... Setting up libcairo2:amd64 (1.18.4-1+b1) ... Setting up python3.13-tk (3.13.11-1+b1) ... Setting up python3-bs4 (4.14.3-1) ... Setting up bowtie2 (2.5.4-1+b2) ... Setting up python3-inflect (7.5.0-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libraqm0:amd64 (0.10.3-1) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.16.0-1) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3.14-tk (3.14.2-1+b1) ... Setting up python3-cairo (1.27.0-2+b1) ... Setting up libcurl3t64-gnutls:amd64 (8.17.0-3) ... Setting up python3-tk (3.13.9-2) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up python3-pil:amd64 (12.0.0-1+b1) ... Setting up python3-pil.imagetk:amd64 (12.0.0-1+b1) ... Setting up python3-rlpycairo (0.3.0-4) ... Setting up python3-reportlab (4.4.5-1) ... Setting up libhts3t64:amd64 (1.22.1+ds2-1) ... Setting up python3-pysam (0.23.3+ds-2+b1) ... Setting up samtools (1.22.1-1) ... Setting up fastaq (3.17.0-9) ... Setting up python3-pymummer (0.12.0-1) ... Setting up python3-fonttools (4.57.0-3+b1) ... Setting up python3-ufolib2 (0.17.1+dfsg1-1) ... Setting up python3-matplotlib (3.10.7+dfsg1-1+b1) ... Processing triggers for libc-bin (2.42-6) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.86+dfsg-1+b1) ... Setting up piuparts-depends-dummy (0.invalid.0) ... 0m46.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-y', '--allow-downgrades', 'install', './tmp/piuparts-depends-dummy.deb'] 0m46.9s INFO: Installation of ['./tmp/piuparts-depends-dummy.deb'] ok 0m46.9s DEBUG: Removing /srv/piuparts.debian.org/tmp/tmpmduvj11u/./tmp/piuparts-depends-dummy.deb 0m46.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m46.9s DUMP: piuparts-depends-dummy install ok installed 0m46.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-query', '-f', '${Package} ${Status}\n', '-W', 'piuparts-depends-dummy'] 0m46.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m46.9s DUMP: (Reading database ... 20516 files and directories currently installed.) Removing piuparts-depends-dummy (0.invalid.0) ... 0m46.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--purge', 'piuparts-depends-dummy'] 0m46.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'clean'] 0m47.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'clean'] 0m47.0s DEBUG: Recording chroot state 0m47.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 0m48.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 0m49.1s ERROR: WARN: Broken symlinks: /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerifCondensed.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerifCondensed.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerifCondensed-Italic.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerifCondensed-Italic.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerifCondensed-BoldItalic.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerifCondensed-BoldItalic.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerifCondensed-Bold.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerifCondensed-Bold.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerif-Italic.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerif-Italic.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerif-BoldItalic.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerif-BoldItalic.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSansCondensed.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSansCondensed.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSansCondensed-Oblique.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSansCondensed-Oblique.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSansCondensed-BoldOblique.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSansCondensed-BoldOblique.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSansCondensed-Bold.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSansCondensed-Bold.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSans-Oblique.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSans-Oblique.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSans-ExtraLight.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSans-ExtraLight.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSans-BoldOblique.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSans-BoldOblique.ttf /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuMathTeXGyre.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuMathTeXGyre.ttf 0m49.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy'] 0m49.6s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m49.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy'] 0m49.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy', 'ariba'] 0m49.6s DUMP: ariba: Installed: (none) Candidate: 2.14.7+ds-10 Version table: 2.14.7+ds-10 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m49.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy', 'ariba'] 0m49.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-y', 'install', 'ariba=2.14.7+ds-10'] 0m50.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... Suggested packages: spades The following NEW packages will be installed: ariba 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 1958 kB of archives. After this operation, 21.1 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 ariba amd64 2.14.7+ds-10 [1958 kB] Fetched 1958 kB in 1s (3153 kB/s) Selecting previously unselected package ariba. (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 ... 20516 files and directories currently installed.) Preparing to unpack .../ariba_2.14.7+ds-10_amd64.deb ... Unpacking ariba (2.14.7+ds-10) ... Setting up ariba (2.14.7+ds-10) ... 0m50.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-y', 'install', 'ariba=2.14.7+ds-10'] 0m50.9s INFO: Running scripts post_install 0m50.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_install_exceptions'] 0m51.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_install_exceptions'] 0m51.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'systemd-tmpfiles', '--cat-config'] 0m51.0s DUMP: chroot: failed to run command 'systemd-tmpfiles': No such file or directory 0m51.0s DEBUG: Command failed (status=127), but ignoring error: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'systemd-tmpfiles', '--cat-config'] 0m51.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'remove', 'ariba'] 0m51.5s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following packages were automatically installed and are no longer required: bowtie2 cd-hit fastaq fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-urw-base35 libabsl20240722 libaom3 libatomic1 libavif16 libblas3 libbrotli1 libcairo2 libcapnp-1.1.0 libcom-err2 libcurl3t64-gnutls libdav1d7 libdeflate0 libexpat1 libffi8 libfml0 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgav1-1 libgfortran5 libglib2.0-0t64 libgnutls30t64 libgomp1 libgraphite2-3 libgsl28 libgslcblas0 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libminimap0 libmurmurhash2 libncurses6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libopenjp2-7 libp11-kit0 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.8 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsqlite3-0 libssh2-1t64 libsvtav1enc2 libtasn1-6 libtcl8.6 libtiff6 libtk8.6 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxrender1 libxslt1.1 libxss1 libyuv0 libzopfli1 mash media-types mummer python-matplotlib-data python3 python3-attr python3-autocommand python3-biopython python3-brotli python3-bs4 python3-cairo python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-dendropy python3-fonttools python3-freetype python3-fs python3-inflect python3-jaraco.context python3-jaraco.functools python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-munkres python3-numpy python3-numpy-dev python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-platformdirs python3-pymummer python3-pyparsing python3-pysam python3-reportlab python3-rlpycairo python3-soupsieve python3-sympy python3-tk python3-typeguard python3-typing-extensions python3-ufolib2 python3-unicodedata2 python3-zopfli python3.13 python3.13-minimal python3.13-tk python3.14-tk samtools sgml-base unicode-data w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: ariba 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded. After this operation, 21.1 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 ... 21318 files and directories currently installed.) Removing ariba (2.14.7+ds-10) ... 0m51.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'remove', 'ariba'] 0m51.5s INFO: Reinstalling after remove 0m51.5s INFO: Running scripts pre_install 0m51.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_database-server'] 0m51.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_database-server'] 0m51.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_exceptions'] 0m51.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_exceptions'] 0m51.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_extras'] 0m51.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_extras'] 0m51.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture'] 0m51.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture'] 0m51.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m51.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m51.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy'] 0m51.5s 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: 0m51.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy'] 0m51.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy', 'ariba'] 0m51.5s DUMP: ariba: Installed: (none) Candidate: 2.14.7+ds-10 Version table: 2.14.7+ds-10 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m51.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy', 'ariba'] 0m51.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-y', 'install', 'ariba=2.14.7+ds-10'] 0m52.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... Suggested packages: spades The following NEW packages will be installed: ariba 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/1958 kB of archives. After this operation, 21.1 MB of additional disk space will be used. Selecting previously unselected package ariba. (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 ... 20516 files and directories currently installed.) Preparing to unpack .../ariba_2.14.7+ds-10_amd64.deb ... Unpacking ariba (2.14.7+ds-10) ... Setting up ariba (2.14.7+ds-10) ... 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-y', 'install', 'ariba=2.14.7+ds-10'] 0m52.3s INFO: Running scripts post_install 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_install_exceptions'] 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_install_exceptions'] 0m52.3s INFO: Running scripts pre_install 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_database-server'] 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_database-server'] 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_exceptions'] 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_exceptions'] 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_extras'] 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_extras'] 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture'] 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture'] 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy'] 0m52.3s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy'] 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy', 'ariba'] 0m52.3s DUMP: ariba: Installed: 2.14.7+ds-10 Candidate: 2.14.7+ds-10 Version table: *** 2.14.7+ds-10 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m52.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-cache', 'policy', 'ariba'] 0m52.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-y', 'install', '--reinstall', 'ariba=2.14.7+ds-10'] 0m53.1s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... 0 upgraded, 0 newly installed, 1 reinstalled, 0 to remove and 0 not upgraded. Need to get 0 B/1958 kB of archives. After this operation, 0 B of additional disk space will be used. (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 ... 21318 files and directories currently installed.) Preparing to unpack .../ariba_2.14.7+ds-10_amd64.deb ... Unpacking ariba (2.14.7+ds-10) over (2.14.7+ds-10) ... Setting up ariba (2.14.7+ds-10) ... 0m53.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', '-y', 'install', '--reinstall', 'ariba=2.14.7+ds-10'] 0m53.1s INFO: Running scripts post_install 0m53.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_install_exceptions'] 0m53.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_install_exceptions'] 0m53.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 0m54.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 0m55.0s ERROR: WARN: Broken symlinks: /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerifCondensed.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerifCondensed.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerifCondensed-Italic.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerifCondensed-Italic.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerifCondensed-BoldItalic.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerifCondensed-BoldItalic.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerifCondensed-Bold.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerifCondensed-Bold.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerif-Italic.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerif-Italic.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSerif-BoldItalic.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSerif-BoldItalic.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSansCondensed.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSansCondensed.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSansCondensed-Oblique.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSansCondensed-Oblique.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSansCondensed-BoldOblique.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSansCondensed-BoldOblique.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSansCondensed-Bold.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSansCondensed-Bold.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSans-Oblique.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSans-Oblique.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSans-ExtraLight.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSans-ExtraLight.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuSans-BoldOblique.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuSans-BoldOblique.ttf (python3-reportlab) /usr/lib/python3/dist-packages/reportlab/fonts/DejaVuMathTeXGyre.ttf -> ../../../../../share/fonts/truetype/dejavu/DejaVuMathTeXGyre.ttf (python3-reportlab) 0m55.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', '-ac', '--ignore-obsolete'] 0m57.3s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', '-ac', '--ignore-obsolete'] 0m57.3s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m57.3s DUMP: 0.15.9~deb12u1 0m57.3s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m57.3s INFO: Running adequate version 0.15.9~deb12u1 now. 0m57.3s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'ariba'] 0m57.3s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'ariba'] 0m57.3s INFO: Running scripts pre_remove 0m57.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m57.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m57.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m57.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m57.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m0.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_exceptions'] 1m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_exceptions'] 1m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_preseed_cleanup'] 1m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/pre_remove_preseed_cleanup'] 1m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m0.5s DUMP: install ok installed apt apt 3.1.12 install ok installed ariba ariba 2.14.7+ds-10 install ok installed base-files base-files 14 install ok installed base-passwd base-passwd 3.6.8 install ok installed bash bash 5.3-1 install ok installed bowtie2 bowtie2 2.5.4-1+b2 install ok installed bsdutils bsdutils 1:2.41.2-4 install ok installed cd-hit cd-hit 4.8.1-4 install ok installed coreutils coreutils 9.7-3 install ok installed dash dash 0.5.12-12 install ok installed dbconfig-common dbconfig-common 2.0.25 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 1:3.12-1 install ok installed dpkg dpkg 1.22.21 install ok installed fastaq fastaq 3.17.0-9 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 2.4.4-2 install ok installed fonts-urw-base35 fonts-urw-base35 20200910-8 install ok installed gawk gawk 1:5.3.2-1 install ok installed gcc-15-base:amd64 gcc-15-base 15.2.0-11 install ok installed grep grep 3.12-1 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 libaom3:amd64 libaom3 3.13.1-2 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.1.12 install ok installed libatomic1:amd64 libatomic1 15.2.0-11 install ok installed libattr1:amd64 libattr1 1:2.5.2-3 install ok installed libaudit-common libaudit-common 1:4.1.2-1 install ok installed libaudit1:amd64 libaudit1 1:4.1.2-1+b1 install ok installed libavif16:amd64 libavif16 1.3.0-1+b1 install ok installed libblas3:amd64 libblas3 3.12.1-7 install ok installed libblkid1:amd64 libblkid1 2.41.2-4 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b9 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 2.42-6 install ok installed libc-gconv-modules-extra:amd64 libc-gconv-modules-extra 2.42-6 install ok installed libc6:amd64 libc6 2.42-6 install ok installed libcairo2:amd64 libcairo2 1.18.4-1+b1 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-4+b2 install ok installed libcap2:amd64 libcap2 1:2.75-10+b2 install ok installed libcapnp-1.1.0:amd64 libcapnp-1.1.0 1.1.0-2.1 install ok installed libcom-err2:amd64 libcom-err2 1.47.2-3+b4 install ok installed libcrypt1:amd64 libcrypt1 1:4.5.1-1 install ok installed libcurl3t64-gnutls:amd64 libcurl3t64-gnutls 8.17.0-3 install ok installed libdav1d7:amd64 libdav1d7 1.5.2-1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-11 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.282+b2 install ok installed libdeflate0:amd64 libdeflate0 1.23-2 install ok installed libexpat1:amd64 libexpat1 2.7.3-1 install ok installed libffi8:amd64 libffi8 3.5.2-3 install ok installed libfml0:amd64 libfml0 0.1+git20221215.85f159e-1 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 1.0.16-4 install ok installed libgav1-1:amd64 libgav1-1 0.19.0-3+b1 install ok installed libgcc-s1:amd64 libgcc-s1 15.2.0-11 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.2-3 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 15.2.0-11 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.86.3-1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.11-3 install ok installed libgomp1:amd64 libgomp1 15.2.0-11 install ok installed libgpg-error0:amd64 libgpg-error0 1.56-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-11 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 libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.22.1-2 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 12.1.0-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.2-1 install ok installed libhts3t64:amd64 libhts3t64 1.22.1+ds2-1 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.6.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.8-4 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 libk5crypto3:amd64 libk5crypto3 1.22.1-2 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-6 install ok installed libkrb5-3:amd64 libkrb5-3 1.22.1-2 install ok installed libkrb5support0:amd64 libkrb5support0 1.22.1-2 install ok installed liblapack3:amd64 liblapack3 3.12.1-7 install ok installed liblcms2-2:amd64 liblcms2-2 2.17-1 install ok installed libldap2:amd64 libldap2 2.6.10+dfsg-1 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-5 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-6 install ok installed liblzma5:amd64 liblzma5 5.8.1-2 install ok installed libmd0:amd64 libmd0 1.1.0-2+b1 install ok installed libminimap0:amd64 libminimap0 0.2-8+b3 install ok installed libmount1:amd64 libmount1 2.41.2-4 install ok installed libmpfr6:amd64 libmpfr6 4.2.2-2 install ok installed libmurmurhash2:amd64 libmurmurhash2 1.6-1+b1 install ok installed libncurses6:amd64 libncurses6 6.5+20251123-1 install ok installed libncursesw6:amd64 libncursesw6 6.5+20251123-1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.2-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.64.0-1.1+b1 install ok installed libnghttp3-9:amd64 libnghttp3-9 1.12.0-1 install ok installed libngtcp2-16:amd64 libngtcp2-16 1.16.0-1 install ok installed libngtcp2-crypto-gnutls8:amd64 libngtcp2-crypto-gnutls8 1.16.0-1 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.3-2.1 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.10-1 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 5.40.1-7 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.46.4-1 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.53-1 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-9 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1+b1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.13.9-2 install ok installed libpython3.13-minimal:amd64 libpython3.13-minimal 3.13.11-1+b1 install ok installed libpython3.13-stdlib:amd64 libpython3.13-stdlib 3.13.11-1+b1 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 librav1e0.8:amd64 librav1e0.8 0.8.1-6 install ok installed libreadline8t64:amd64 libreadline8t64 8.3-3 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-3 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-10 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-10 install ok installed libseccomp2:amd64 libseccomp2 2.6.0-2+b1 install ok installed libselinux1:amd64 libselinux1 3.9-4+b1 install ok installed libsemanage-common libsemanage-common 3.9-1 install ok installed libsemanage2:amd64 libsemanage2 3.9-1+b1 install ok installed libsepol2:amd64 libsepol2 3.9-2 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.5.0-0.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.41.2-4 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-8 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.1-1 install ok installed libssl3t64:amd64 libssl3t64 3.5.4-1 install ok installed libstdc++6:amd64 libstdc++6 15.2.0-11 install ok installed libsvtav1enc2:amd64 libsvtav1enc2 2.3.0+dfsg-1 install ok installed libsystemd0:amd64 libsystemd0 259~rc3-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.20.0-2 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.17+dfsg-1 install ok installed libtext-charwidth-perl:amd64 libtext-charwidth-perl 0.04-11+b4 install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-10 install ok installed libtiff6:amd64 libtiff6 4.7.1-1 install ok installed libtinfo6:amd64 libtinfo6 6.5+20251123-1 install ok installed libtk8.6:amd64 libtk8.6 8.6.17-1 install ok installed libudev1:amd64 libudev1 259~rc3-1 install ok installed libunistring5:amd64 libunistring5 1.3-2 install ok installed libuuid1:amd64 libuuid1 2.41.2-4 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 2.15.1+dfsg-2+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.12-1 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.43-0.3 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 0.0.1922.20251210-1 install ok installed libzopfli1 libzopfli1 1.0.3-3 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-2 install ok installed login login 1:4.16.0-2+really2.41.2-4 install ok installed login.defs login.defs 1:4.18.0-2 install ok installed mash mash 2.3+dfsg-6+b2 install ok installed mawk mawk 1.3.4.20250131-1 install ok installed media-types media-types 14.0.0 install ok installed mount mount 2.41.2-4 install ok installed mummer mummer 3.23+dfsg-8 install ok installed ncurses-base ncurses-base 6.5+20251123-1 install ok installed ncurses-bin ncurses-bin 6.5+20251123-1 install ok installed netbase netbase 6.5 install ok installed openssl-provider-legacy openssl-provider-legacy 3.5.4-1 install ok installed passwd passwd 1:4.18.0-2 install ok installed perl perl 5.40.1-7 install ok installed perl-base perl-base 5.40.1-7 install ok installed perl-modules-5.40 perl-modules-5.40 5.40.1-7 install ok installed procps procps 2:4.0.4-9 install ok installed python-matplotlib-data python-matplotlib-data 3.10.7+dfsg1-1 install ok installed python3 python3 3.13.9-2 install ok installed python3-attr python3-attr 25.4.0-1 install ok installed python3-autocommand python3-autocommand 2.2.2-3 install ok installed python3-biopython python3-biopython 1.86+dfsg-1+b1 install ok installed python3-brotli python3-brotli 1.1.0-2+b9 install ok installed python3-bs4 python3-bs4 4.14.3-1 install ok installed python3-cairo python3-cairo 1.27.0-2+b1 install ok installed python3-charset-normalizer python3-charset-normalizer 3.4.4-2 install ok installed python3-contourpy python3-contourpy 1.3.3-1+b1 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-dendropy python3-dendropy 4.6.1-2 install ok installed python3-fonttools python3-fonttools 4.57.0-3+b1 install ok installed python3-freetype python3-freetype 2.5.1-2 install ok installed python3-fs python3-fs 2.4.16-9 install ok installed python3-inflect python3-inflect 7.5.0-1 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-kiwisolver python3-kiwisolver 1.4.10~rc0-1+b1 install ok installed python3-lxml:amd64 python3-lxml 6.0.2-1+b3 install ok installed python3-lz4 python3-lz4 4.4.5+dfsg-1 install ok installed python3-matplotlib python3-matplotlib 3.10.7+dfsg1-1+b1 install ok installed python3-minimal python3-minimal 3.13.9-2 install ok installed python3-more-itertools python3-more-itertools 10.8.0-1 install ok installed python3-mpmath python3-mpmath 1.3.0-2 install ok installed python3-munkres python3-munkres 1.1.4-3 install ok installed python3-numpy python3-numpy 1:2.3.5+ds-2+b1 install ok installed python3-numpy-dev:amd64 python3-numpy-dev 1:2.3.5+ds-2+b1 install ok installed python3-packaging python3-packaging 25.0-1 install ok installed python3-pil:amd64 python3-pil 12.0.0-1+b1 install ok installed python3-pil.imagetk:amd64 python3-pil.imagetk 12.0.0-1+b1 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-pymummer python3-pymummer 0.12.0-1 install ok installed python3-pyparsing python3-pyparsing 3.1.3-1 install ok installed python3-pysam python3-pysam 0.23.3+ds-2+b1 install ok installed python3-reportlab python3-reportlab 4.4.5-1 install ok installed python3-rlpycairo python3-rlpycairo 0.3.0-4 install ok installed python3-soupsieve python3-soupsieve 2.7-2 install ok installed python3-sympy python3-sympy 1.14.0-2 install ok installed python3-tk python3-tk 3.13.9-2 install ok installed python3-typeguard python3-typeguard 4.4.4-1 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+b1 install ok installed python3-zopfli python3-zopfli 0.4.0-1 install ok installed python3.13 python3.13 3.13.11-1+b1 install ok installed python3.13-minimal python3.13-minimal 3.13.11-1+b1 install ok installed python3.13-tk python3.13-tk 3.13.11-1+b1 install ok installed python3.14-tk python3.14-tk 3.14.2-1+b1 install ok installed readline-common readline-common 8.3-3 install ok installed samtools samtools 1.22.1-1 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.26 install ok installed sgml-base sgml-base 1.31+nmu1 install ok installed sqv sqv 1.3.0-5 install ok installed sysvinit-utils sysvinit-utils 3.15-6 install ok installed tar tar 1.35+dfsg-3.1 install ok installed tzdata tzdata 2025c-1 install ok installed ucf ucf 3.0052 install ok installed unicode-data unicode-data 16.0.0-1 install ok installed util-linux util-linux 2.41.2-4 install ok installed w3c-sgml-lib w3c-sgml-lib 1.3-3 install ok installed x11-common x11-common 1:7.7+26 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 1m0.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m0.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'remove', '--allow-remove-essential', 'bowtie2', 'cd-hit', 'fastaq', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'gawk', 'libabsl20240722:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcapnp-1.1.0:amd64', 'libcom-err2:amd64', 'libcurl3t64-gnutls:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libfml0: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', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libidn2-0:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblerc4:amd64', 'libminimap0:amd64', 'libmpfr6:amd64', 'libmurmurhash2:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libopenjp2-7:amd64', 'libp11-kit0:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsvtav1enc2:amd64', 'libtasn1-6:amd64', 'libtcl8.6:amd64', 'libtiff6:amd64', 'libtk8.6:amd64', 'libunistring5: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', 'mash', 'media-types', 'mummer', 'netbase', 'perl', 'perl-modules-5.40', 'python-matplotlib-data', 'python3', 'python3-attr', 'python3-autocommand', 'python3-biopython', 'python3-brotli', 'python3-bs4', 'python3-cairo', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-dendropy', 'python3-fonttools', 'python3-freetype', 'python3-fs', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-kiwisolver', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-munkres', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-platformdirs', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-soupsieve', 'python3-sympy', 'python3-tk', 'python3-typeguard', 'python3-typing-extensions', 'python3-ufolib2', 'python3-unicodedata2', 'python3-zopfli', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'python3.14-tk', 'readline-common', 'samtools', 'sgml-base', 'unicode-data', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'ariba'] 1m21.9s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following packages will be REMOVED: ariba bowtie2 cd-hit fastaq fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-urw-base35 gawk libabsl20240722 libaom3 libatomic1 libavif16 libblas3 libbrotli1 libcairo2 libcapnp-1.1.0 libcom-err2 libcurl3t64-gnutls libdav1d7 libdeflate0 libexpat1 libffi8 libfml0 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgav1-1 libgcrypt20 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgnutls30t64 libgomp1 libgpg-error0 libgraphite2-3 libgsl28 libgslcblas0 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libidn2-0 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libminimap0 libmpfr6 libmurmurhash2 libncurses6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libopenjp2-7 libp11-kit0 libperl5.40 libpixman-1-0 libpng16-16t64 libpsl5t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.8 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsqlite3-0 libssh2-1t64 libsvtav1enc2 libtasn1-6 libtcl8.6 libtiff6 libtk8.6 libunistring5 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxrender1 libxslt1.1 libxss1 libyuv0 libzopfli1 mash media-types mummer netbase perl perl-modules-5.40 python-matplotlib-data python3 python3-attr python3-autocommand python3-biopython python3-brotli python3-bs4 python3-cairo python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-dendropy python3-fonttools python3-freetype python3-fs python3-inflect python3-jaraco.context python3-jaraco.functools python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-munkres python3-numpy python3-numpy-dev python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-platformdirs python3-pymummer python3-pyparsing python3-pysam python3-reportlab python3-rlpycairo python3-soupsieve python3-sympy python3-tk python3-typeguard python3-typing-extensions python3-ufolib2 python3-unicodedata2 python3-zopfli python3.13 python3.13-minimal python3.13-tk python3.14-tk readline-common samtools sgml-base unicode-data w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 0 newly installed, 174 to remove and 0 not upgraded. After this operation, 519 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 ... 21318 files and directories currently installed.) Removing ariba (2.14.7+ds-10) ... Removing bowtie2 (2.5.4-1+b2) ... Removing cd-hit (4.8.1-4) ... Removing python3-pymummer (0.12.0-1) ... Removing fastaq (3.17.0-9) ... Removing python3-biopython (1.86+dfsg-1+b1) ... Removing python3-reportlab (4.4.5-1) ... Removing python3-matplotlib (3.10.7+dfsg1-1+b1) ... Removing python3-pil.imagetk:amd64 (12.0.0-1+b1) ... Removing python3-pil:amd64 (12.0.0-1+b1) ... Removing python3-tk (3.13.9-2) ... Removing python3.14-tk (3.14.2-1+b1) ... Removing python3.13-tk (3.13.11-1+b1) ... Removing libtk8.6:amd64 (8.6.17-1) ... Removing libxft2:amd64 (2.3.6-1+b4) ... Removing python3-rlpycairo (0.3.0-4) ... Removing python3-cairo (1.27.0-2+b1) ... 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 python-matplotlib-data (3.10.7+dfsg1-1) ... Removing fonts-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing fonts-lyx (2.4.4-2) ... Removing fonts-urw-base35 (20200910-8) ... Removing mummer (3.23+dfsg-8) ... Removing gawk (1:5.3.2-1) ... update-alternatives: using /usr/bin/mawk to provide /usr/bin/awk (awk) in auto mode Removing libavif16:amd64 (1.3.0-1+b1) ... Removing libgav1-1:amd64 (0.19.0-3+b1) ... Removing libabsl20240722:amd64 (20240722.0-4) ... Removing libaom3:amd64 (3.13.1-2) ... Removing libraqm0:amd64 (0.10.3-1) ... Removing libharfbuzz0b:amd64 (12.1.0-1) ... Removing libglib2.0-0t64:amd64 (2.86.3-1) ... Removing libatomic1:amd64 (15.2.0-11) ... Removing python3-contourpy (1.3.3-1+b1) ... Removing python3-numpy (1:2.3.5+ds-2+b1) ... Removing liblapack3:amd64 (3.12.1-7) ... Removing libblas3:amd64 (3.12.1-7) ... Removing xfonts-utils (1:7.7+7) ... Removing python3-freetype (2.5.1-2) ... Removing libfreetype6:amd64 (2.13.3+dfsg-1) ... Removing samtools (1.22.1-1) ... Removing mash (2.3+dfsg-6+b2) ... Removing libcapnp-1.1.0:amd64 (1.1.0-2.1) ... Removing libdav1d7:amd64 (1.5.2-1) ... Removing libtiff6:amd64 (4.7.1-1) ... Removing python3-pkg-resources (78.1.1-0.1) ... Removing python3-inflect (7.5.0-1) ... Removing python3-typeguard (4.4.4-1) ... Removing python3-bs4 (4.14.3-1) ... Removing python3-soupsieve (2.7-2) ... Removing python3-jaraco.context (6.0.1-1) ... Removing libfml0:amd64 (0.1+git20221215.85f159e-1) ... Removing libfontenc1:amd64 (1:1.1.8-1+b2) ... Removing libfribidi0:amd64 (1.0.16-4) ... Removing perl (5.40.1-7) ... Removing libperl5.40:amd64 (5.40.1-7) ... Removing libgdbm-compat4t64:amd64 (1.26-1) ... Removing libgdbm6t64:amd64 (1.26-1) ... Removing libgfortran5:amd64 (15.2.0-11) ... Removing libgomp1:amd64 (15.2.0-11) ... Removing libgraphite2-3:amd64 (1.3.14-11) ... Removing libgsl28:amd64 (2.8+dfsg-5.1) ... Removing libgslcblas0:amd64 (2.8+dfsg-5.1) ... Removing libimagequant0:amd64 (4.4.0-3) ... Removing libjbig0:amd64 (2.1-6.1+b2) ... Removing libyuv0:amd64 (0.0.1922.20251210-1) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-4) ... Removing liblcms2-2:amd64 (2.17-1) ... Removing liblerc4:amd64 (4.0.0+ds-5) ... Removing libminimap0:amd64 (0.2-8+b3) ... Removing libmpfr6:amd64 (4.2.2-2) ... Removing libmurmurhash2:amd64 (1.6-1+b1) ... Removing libncurses6:amd64 (6.5+20251123-1) ... Removing libopenjp2-7:amd64 (2.5.3-2.1) ... Removing libpixman-1-0:amd64 (0.46.4-1) ... Removing libpng16-16t64:amd64 (1.6.53-1) ... Removing libqhull-r8.0:amd64 (2020.2-7) ... Removing librav1e0.8:amd64 (0.8.1-6) ... 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 libtcl8.6:amd64 (8.6.17+dfsg-1) ... Removing libxss1:amd64 (1:1.2.3-1+b3) ... 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 perl-modules-5.40 (5.40.1-7) ... Removing python3-autocommand (2.2.2-3) ... Removing python3-charset-normalizer (3.4.4-2) ... Removing python3-cycler (0.12.1-2) ... Removing python3-dateutil (2.9.0-4) ... Removing python3-dendropy (4.6.1-2) ... Removing python3-jaraco.functools (4.1.0-1) ... Removing python3-kiwisolver (1.4.10~rc0-1+b1) ... Removing python3-more-itertools (10.8.0-1) ... Removing python3-numpy-dev:amd64 (1:2.3.5+ds-2+b1) ... Removing python3-packaging (25.0-1) ... Removing python3-pyparsing (3.1.3-1) ... Removing python3-pysam (0.23.3+ds-2+b1) ... 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+26) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing libhts3t64:amd64 (1.22.1+ds2-1) ... Removing libcurl3t64-gnutls:amd64 (8.17.0-3) ... Removing libbrotli1:amd64 (1.1.0-2+b9) ... Removing libgssapi-krb5-2:amd64 (1.22.1-2) ... Removing libkrb5-3:amd64 (1.22.1-2) ... Removing libcom-err2:amd64 (1.47.2-3+b4) ... Removing libdeflate0:amd64 (1.23-2) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Removing libhtscodecs2:amd64 (1.6.1-2) ... Removing libpsl5t64:amd64 (0.21.2-1.1+b1) ... Removing libk5crypto3:amd64 (1.22.1-2) ... Removing libkeyutils1:amd64 (1.6.3-6) ... Removing libkrb5support0:amd64 (1.22.1-2) ... Removing libldap2:amd64 (2.6.10+dfsg-1) ... Removing libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Removing libnghttp3-9:amd64 (1.12.0-1) ... Removing libngtcp2-crypto-gnutls8:amd64 (1.16.0-1) ... Removing libngtcp2-16:amd64 (1.16.0-1) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-10) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-10) ... Removing libssh2-1t64:amd64 (1.11.1-1) ... 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 libgnutls30t64:amd64 (3.8.11-3) ... Removing libp11-kit0:amd64 (0.25.10-1) ... Removing libidn2-0:amd64 (2.3.8-4) ... Removing libtasn1-6:amd64 (4.20.0-2) ... Removing libunistring5:amd64 (1.3-2) ... Removing python3-ufolib2 (0.17.1+dfsg1-1) ... Removing python3-attr (25.4.0-1) ... Removing python3-fonttools (4.57.0-3+b1) ... Removing python3-zopfli (0.4.0-1) ... Removing python3-sympy (1.14.0-2) ... Removing python3-unicodedata2 (16.0.0+ds-1+b1) ... Removing python3-lxml:amd64 (6.0.2-1+b3) ... Removing libxslt1.1:amd64 (1.1.43-0.3) ... Removing libgcrypt20:amd64 (1.11.2-3) ... Removing libgpg-error0:amd64 (1.56-2) ... Removing libxml2-16:amd64 (2.15.1+dfsg-2+b1) ... Removing libzopfli1 (1.0.3-3) ... Removing python3-brotli (1.1.0-2+b9) ... Removing python3-fs (2.4.16-9) ... Removing python3-lz4 (4.4.5+dfsg-1) ... Removing python3-mpmath (1.3.0-2) ... Removing python3-munkres (1.1.4-3) ... Removing python3-platformdirs (4.4.0-1) ... Removing unicode-data (16.0.0-1) ... Removing python3 (3.13.9-2) ... Removing python3.13 (3.13.11-1+b1) ... Removing python3-minimal (3.13.9-2) ... Removing python3.13-minimal (3.13.11-1+b1) ... Removing libexpat1:amd64 (2.7.3-1) ... Removing libpython3-stdlib:amd64 (3.13.9-2) ... Removing libpython3.13-stdlib:amd64 (3.13.11-1+b1) ... find: '/usr/lib/python3': No such file or directory Removing libffi8:amd64 (3.5.2-3) ... Removing libpython3.13-minimal:amd64 (3.13.11-1+b1) ... 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 libsqlite3-0:amd64 (3.46.1-8) ... Removing media-types (14.0.0) ... Removing netbase (6.5) ... Removing readline-common (8.3-3) ... Processing triggers for libc-bin (2.42-6) ... 1m21.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'remove', '--allow-remove-essential', 'bowtie2', 'cd-hit', 'fastaq', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'gawk', 'libabsl20240722:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcapnp-1.1.0:amd64', 'libcom-err2:amd64', 'libcurl3t64-gnutls:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libfml0: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', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libidn2-0:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblerc4:amd64', 'libminimap0:amd64', 'libmpfr6:amd64', 'libmurmurhash2:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libopenjp2-7:amd64', 'libp11-kit0:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsvtav1enc2:amd64', 'libtasn1-6:amd64', 'libtcl8.6:amd64', 'libtiff6:amd64', 'libtk8.6:amd64', 'libunistring5: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', 'mash', 'media-types', 'mummer', 'netbase', 'perl', 'perl-modules-5.40', 'python-matplotlib-data', 'python3', 'python3-attr', 'python3-autocommand', 'python3-biopython', 'python3-brotli', 'python3-bs4', 'python3-cairo', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-dendropy', 'python3-fonttools', 'python3-freetype', 'python3-fs', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-kiwisolver', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-munkres', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-platformdirs', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-soupsieve', 'python3-sympy', 'python3-tk', 'python3-typeguard', 'python3-typing-extensions', 'python3-ufolib2', 'python3-unicodedata2', 'python3-zopfli', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'python3.14-tk', 'readline-common', 'samtools', 'sgml-base', 'unicode-data', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'ariba'] 1m21.9s INFO: Running scripts post_remove 1m21.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_remove_cleanup'] 1m21.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_remove_cleanup'] 1m21.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_remove_exceptions'] 1m21.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_remove_exceptions'] 1m21.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--purge', 'bowtie2', 'cd-hit', 'fastaq', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'gawk', 'libabsl20240722:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcapnp-1.1.0:amd64', 'libcom-err2:amd64', 'libcurl3t64-gnutls:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libfml0: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', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libidn2-0:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblerc4:amd64', 'libminimap0:amd64', 'libmpfr6:amd64', 'libmurmurhash2:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libopenjp2-7:amd64', 'libp11-kit0:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsvtav1enc2:amd64', 'libtasn1-6:amd64', 'libtcl8.6:amd64', 'libtiff6:amd64', 'libtk8.6:amd64', 'libunistring5: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', 'mash', 'media-types', 'mummer', 'netbase', 'perl', 'perl-modules-5.40', 'python-matplotlib-data', 'python3', 'python3-attr', 'python3-autocommand', 'python3-biopython', 'python3-brotli', 'python3-bs4', 'python3-cairo', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-dendropy', 'python3-fonttools', 'python3-freetype', 'python3-fs', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-kiwisolver', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-munkres', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-platformdirs', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-soupsieve', 'python3-sympy', 'python3-tk', 'python3-typeguard', 'python3-typing-extensions', 'python3-ufolib2', 'python3-unicodedata2', 'python3-zopfli', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'python3.14-tk', 'readline-common', 'samtools', 'sgml-base', 'unicode-data', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 1m22.2s DUMP: dpkg: warning: ignoring request to remove bowtie2 which isn't installed dpkg: warning: ignoring request to remove cd-hit which isn't installed dpkg: warning: ignoring request to remove fastaq which isn't installed (Reading database ... 5492 files and directories currently 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) ... Purging configuration files for gawk (1:5.3.2-1) ... dpkg: warning: ignoring request to remove libabsl20240722 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 libcapnp-1.1.0 which isn't installed dpkg: warning: ignoring request to remove libcom-err2 which isn't installed dpkg: warning: ignoring request to remove libcurl3t64-gnutls 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 libexpat1 which isn't installed dpkg: warning: ignoring request to remove libffi8 which isn't installed dpkg: warning: ignoring request to remove libfml0 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 (2.86.3-1) ... dpkg: warning: ignoring request to remove libgnutls30t64 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 Purging configuration files for libgssapi-krb5-2:amd64 (1.22.1-2) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhts3t64 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libidn2-0 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 libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 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 libldap2 which isn't installed dpkg: warning: ignoring request to remove liblerc4 which isn't installed dpkg: warning: ignoring request to remove libminimap0 which isn't installed dpkg: warning: ignoring request to remove libmpfr6 which isn't installed dpkg: warning: ignoring request to remove libmurmurhash2 which isn't installed dpkg: warning: ignoring request to remove libncurses6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnghttp3-9 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-16 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-crypto-gnutls8 which isn't installed dpkg: warning: ignoring request to remove libopenjp2-7 which isn't installed dpkg: warning: ignoring request to remove libp11-kit0 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 libpsl5t64 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.13-minimal:amd64 (3.13.11-1+b1) ... 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 librav1e0.8 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.3-3) ... dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libsvtav1enc2 which isn't installed dpkg: warning: ignoring request to remove libtasn1-6 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 libunistring5 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 mash which isn't installed Purging configuration files for media-types (14.0.0) ... dpkg: warning: ignoring request to remove mummer which isn't installed Purging configuration files for netbase (6.5) ... Purging configuration files for perl (5.40.1-7) ... dpkg: warning: ignoring request to remove perl-modules-5.40 which isn't installed Purging configuration files for python-matplotlib-data (3.10.7+dfsg1-1) ... Purging configuration files for python3 (3.13.9-2) ... 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-biopython which isn't installed dpkg: warning: ignoring request to remove python3-brotli which isn't installed dpkg: warning: ignoring request to remove python3-bs4 which isn't installed dpkg: warning: ignoring request to remove python3-cairo 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-cycler which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-dendropy 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-inflect 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-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-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-munkres which isn't installed Purging configuration files for python3-numpy (1:2.3.5+ds-2+b1) ... 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-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-pymummer which isn't installed dpkg: warning: ignoring request to remove python3-pyparsing which isn't installed dpkg: warning: ignoring request to remove python3-pysam which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-rlpycairo which isn't installed dpkg: warning: ignoring request to remove python3-soupsieve 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-typeguard 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-zopfli which isn't installed dpkg: warning: ignoring request to remove python3.13 which isn't installed Purging configuration files for python3.13-minimal (3.13.11-1+b1) ... dpkg: warning: ignoring request to remove python3.13-tk which isn't installed dpkg: warning: ignoring request to remove python3.14-tk which isn't installed Purging configuration files for readline-common (8.3-3) ... dpkg: warning: ignoring request to remove samtools which isn't installed Purging configuration files for sgml-base (1.31+nmu1) ... dpkg: warning: ignoring request to remove unicode-data which isn't installed Purging configuration files for w3c-sgml-lib (1.3-3) ... Purging configuration files for x11-common (1:7.7+26) ... 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) ... 1m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--purge', 'bowtie2', 'cd-hit', 'fastaq', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'gawk', 'libabsl20240722:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcapnp-1.1.0:amd64', 'libcom-err2:amd64', 'libcurl3t64-gnutls:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libffi8:amd64', 'libfml0: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', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgsl28:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libidn2-0:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap2:amd64', 'liblerc4:amd64', 'libminimap0:amd64', 'libmpfr6:amd64', 'libmurmurhash2:amd64', 'libncurses6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libopenjp2-7:amd64', 'libp11-kit0:amd64', 'libperl5.40:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsvtav1enc2:amd64', 'libtasn1-6:amd64', 'libtcl8.6:amd64', 'libtiff6:amd64', 'libtk8.6:amd64', 'libunistring5: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', 'mash', 'media-types', 'mummer', 'netbase', 'perl', 'perl-modules-5.40', 'python-matplotlib-data', 'python3', 'python3-attr', 'python3-autocommand', 'python3-biopython', 'python3-brotli', 'python3-bs4', 'python3-cairo', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-dendropy', 'python3-fonttools', 'python3-freetype', 'python3-fs', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-kiwisolver', 'python3-lxml:amd64', 'python3-lz4', 'python3-matplotlib', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-munkres', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pkg-resources', 'python3-platformdirs', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-soupsieve', 'python3-sympy', 'python3-tk', 'python3-typeguard', 'python3-typing-extensions', 'python3-ufolib2', 'python3-unicodedata2', 'python3-zopfli', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'python3.14-tk', 'readline-common', 'samtools', 'sgml-base', 'unicode-data', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 1m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--purge', 'ariba'] 1m22.2s DUMP: dpkg: warning: ignoring request to remove ariba which isn't installed 1m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--purge', 'ariba'] 1m22.2s INFO: Running scripts post_purge 1m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_purge_exceptions'] 1m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_purge_exceptions'] 1m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_purge_manual_cleanup'] 1m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_purge_manual_cleanup'] 1m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--purge', '--pending'] 1m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--purge', '--pending'] 1m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--remove', '--pending'] 1m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg', '--remove', '--pending'] 1m22.2s INFO: Running scripts post_test 1m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_test_exceptions'] 1m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'tmp/scripts/post_test_exceptions'] 1m22.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 1m22.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 1m22.6s DEBUG: No broken symlinks as far as we can find. 1m22.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-divert', '--list'] 1m22.6s 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 1m22.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'dpkg-divert', '--list'] 1m22.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'clean'] 1m22.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpmduvj11u', 'apt-get', 'clean'] 1m22.6s DEBUG: Recording chroot state 1m23.3s INFO: PASS: Installation and purging test. 1m23.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/shm'] 1m23.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/shm'] 1m23.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/console'] 1m23.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/console'] 1m23.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/ptmx'] 1m23.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/ptmx'] 1m23.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/pts'] 1m23.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/dev/pts'] 1m23.6s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/proc'] 1m23.6s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpmduvj11u/proc'] 1m23.6s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 1m23.7s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpmduvj11u'] 1m23.7s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpmduvj11u 1m23.7s INFO: PASS: All tests. 1m23.7s INFO: piuparts run ends. ret=0 End: 2025-12-13 14:50:00 GMT