Start: 2026-05-18 21:37:06 GMT Package: cnvkit Version: 0.9.13-1 Installed-Size: 94987 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython (>> 1.85), python3-matplotlib (>> 3.9), python3-numpy, python3-pandas (>> 2.2.3), python3-pomegranate (>= 1.0), python3-pyfaidx (>> 0.8.1.3), python3-pyparsing, python3-pysam (>> 0.23.0), python3-reportlab, python3-scipy (>> 1.14.1), python3-sklearn, python3:any, r-bioc-dnacopy Description: Copy number variant detection from targeted DNA sequencing Homepage: https://cnvkit.readthedocs.org Description-md5: 0b8ab5ba6be9de3379277ab7a92a7b5d Section: science Priority: optional Filename: pool/main/c/cnvkit/cnvkit_0.9.13-1_all.deb Size: 20046416 MD5sum: 3596bed418fd55b781f0d51e76f48b81 SHA256: ce788432a151ea077fc0f4256d8364ef892ca3505e322fbf3656d0b97c265b48 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/bin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt cnvkit=0.9.13-1 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 1.6.1~202508211944~1.6.0-10-gffba2cce starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/bin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz -d sid --no-upgrade-test --apt cnvkit=0.9.13-1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 6.1.0-48-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.172-1 (2026-05-15) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp78sc09w_ 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp78sc09w_ 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.6s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/sid-merged-usr_amd64.tar.gz'] 0m0.6s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/proc'] 0m0.6s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/proc'] 0m0.6s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/pts'] 0m0.6s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/pts'] 0m0.6s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/ptmx'] 0m0.6s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/ptmx'] 0m0.6s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/6', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/console'] 0m0.6s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/6', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/console'] 0m0.6s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/shm'] 0m0.6s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/shm'] 0m0.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m0.6s DEBUG: Created policy-rc.d and chmodded it. 0m0.6s DEBUG: Created resolv.conf. 0m0.6s DEBUG: Copying scriptsdir /etc/piuparts/scripts-log-alternatives to /srv/piuparts.debian.org/tmp/tmp78sc09w_/tmp/scripts/ 0m0.6s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp78sc09w_/tmp/scripts/ 0m0.6s INFO: Running scripts post_chroot_unpack 0m0.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', 'update'] 0m4.6s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [189 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [10.5 MB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7601 kB] Fetched 18.3 MB in 3s (6696 kB/s) Reading package lists... 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', 'update'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', '-yf', 'dist-upgrade'] 0m6.3s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... The following packages will be upgraded: apt libapt-pkg7.0 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2741 kB of archives. After this operation, 0 B of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libapt-pkg7.0 amd64 3.3.1 [1223 kB] Get:2 http://deb.debian.org/debian sid/main amd64 apt amd64 3.3.1 [1519 kB] Fetched 2741 kB in 0s (46.0 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4901 files and directories currently installed.) Preparing to unpack .../libapt-pkg7.0_3.3.1_amd64.deb ... Unpacking libapt-pkg7.0:amd64 (3.3.1) over (3.3.0) ... Setting up libapt-pkg7.0:amd64 (3.3.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4901 files and directories currently installed.) Preparing to unpack .../archives/apt_3.3.1_amd64.deb ... Unpacking apt (3.3.1) over (3.3.0) ... Setting up apt (3.3.1) ... Processing triggers for libc-bin (2.42-16) ... 0m6.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', '-yf', 'dist-upgrade'] 0m6.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m7.6s DUMP: 2af3ccec75bb5e7f4d67aa993cc4e13e - 0m7.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m7.6s INFO: Running scripts post_setup 0m7.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_dummy_users'] 0m8.4s 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 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_dummy_users'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_forbid_home'] 0m8.4s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_forbid_home'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.4s 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' 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_force-unsafe-io'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_minimize'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_minimize'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_squeeze-backports'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_zz_backports'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_setup_zz_backports'] 0m8.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', 'clean'] 0m8.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', 'clean'] 0m8.4s DEBUG: Recording chroot state 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.8s DUMP: install ok installed apt apt 3.3.1 install ok installed base-files base-files 14.0 install ok installed base-passwd base-passwd 3.6.8 install ok installed bash bash 5.3-3 install ok installed bsdutils bsdutils 1:2.42-6 install ok installed coreutils coreutils 9.10-1 install ok installed dash dash 0.5.12-12 install ok installed debconf debconf 1.5.92 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 1.23.7 install ok installed findutils findutils 4.10.0-4 install ok installed gcc-16-base:amd64 gcc-16-base 16.1.0-1 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 2.3.2-3 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.3.1 install ok installed libattr1:amd64 libattr1 1:2.5.2-4 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 2.42-6 install ok installed libbsd0:amd64 libbsd0 0.12.2-2+b2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6+b2 install ok installed libc-bin libc-bin 2.42-16 install ok installed libc-gconv-modules-extra:amd64 libc-gconv-modules-extra 2.42-16 install ok installed libc6:amd64 libc6 2.42-16 install ok installed libcap-ng0:amd64 libcap-ng0 0.9.3-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.5.1-1+b1 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-11+b1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.283 install ok installed libgcc-s1:amd64 libgcc-s1 16.1.0-1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5+b2 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.2-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-10 install ok installed liblzma5:amd64 liblzma5 5.8.3-1 install ok installed libmd0:amd64 libmd0 1.2.0-1 install ok installed libmount1:amd64 libmount1 2.42-6 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.2-1+b1 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-5+b2 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-5+b2 install ok installed libpam-runtime libpam-runtime 1.7.0-5 install ok installed libpam0g:amd64 libpam0g 1.7.0-5+b2 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.46-1+b2 install ok installed libseccomp2:amd64 libseccomp2 2.6.0-2+b1 install ok installed libselinux1:amd64 libselinux1 3.10-1 install ok installed libsemanage-common libsemanage-common 3.10-1 install ok installed libsemanage2:amd64 libsemanage2 3.10-1 install ok installed libsepol2:amd64 libsepol2 3.10-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.42-6 install ok installed libssl3t64:amd64 libssl3t64 3.6.2-1 install ok installed libstdc++6:amd64 libstdc++6 16.1.0-1 install ok installed libsystemd0:amd64 libsystemd0 260.1-1 install ok installed libtinfo6:amd64 libtinfo6 6.6+20251231-1+b1 install ok installed libudev1:amd64 libudev1 260.1-1 install ok installed libuuid1:amd64 libuuid1 2.42-6 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2+b2 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-3+b2 install ok installed login login 1:4.16.0-2+really2.42-6 install ok installed login.defs login.defs 1:4.19.3-2 install ok installed mawk mawk 1.3.4.20260302-1 install ok installed mount mount 2.42-6 install ok installed ncurses-base ncurses-base 6.6+20251231-1 install ok installed ncurses-bin ncurses-bin 6.6+20251231-1+b1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.6.2-1 install ok installed passwd passwd 1:4.19.3-2 install ok installed perl-base perl-base 5.40.1-7+b1 install ok installed sed sed 4.9-3 install ok installed sqv sqv 1.3.0-5+b1 install ok installed sysvinit-utils sysvinit-utils 3.18-1 install ok installed tar tar 1.35+dfsg-4 install ok installed tzdata tzdata 2026b-1 install ok installed util-linux util-linux 2.42-6 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.2-3 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg-divert', '--list'] 0m8.8s 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 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg-divert', '--list'] 0m8.8s INFO: Running scripts is_testable 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/is_testable_uninstallable'] 0m8.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/is_testable_uninstallable'] 0m8.8s INFO: apt-cache does not know about any of the requested packages 0m8.8s INFO: Running scripts pre_test 0m8.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_test_exceptions'] 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_test_exceptions'] 0m8.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_test_root_password'] 0m8.9s DUMP: New password: Retype new password: passwd: password updated successfully 0m8.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_test_root_password'] 0m8.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 0m9.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 0m9.4s DEBUG: No broken symlinks as far as we can find. 0m9.4s INFO: Running scripts pre_install 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_database-server'] 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_database-server'] 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_exceptions'] 0m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_exceptions'] 0m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_extras'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_extras'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_foreign_architecture'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_log_alternatives'] 0m9.5s DUMP: Adding 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' dpkg-divert: warning: diverting file '/usr/bin/update-alternatives' from an Essential package with rename is dangerous, use --no-rename 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_install_log_alternatives'] 0m9.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 0m9.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 0m10.3s DEBUG: No broken symlinks as far as we can find. 0m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-cache', 'policy'] 0m11.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-cache', 'policy'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-cache', 'policy', 'cnvkit'] 0m11.0s DUMP: cnvkit: Installed: (none) Candidate: 0.9.13-1 Version table: 0.9.13-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 0m11.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-cache', 'policy', 'cnvkit'] 0m11.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', '-y', 'install', 'cnvkit=0.9.13-1'] 2m3.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following additional packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono fonts-lyx fonts-urw-base35 ibverbs-providers libabsl20260107 libamd-comgr3 libamdhip64-6 libaom3 libatomic1 libavif16 libbenchmark1.9.1 libblas3 libbrotli1 libcairo2 libclang-common-21-dev libcom-err2 libcpp-httplib0.41 libcpuinfo0 libcurl3t64-gnutls libcurl4t64 libdatrie1 libdav1d7 libdeflate0 libdnnl3.6 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libexpat1 libfabric1 libffi8 libfmt10 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libfuse3-4 libgav1-2 libgcrypt20 libgfortran5 libglib2.0-0t64 libgloo0 libgnutls30t64 libgomp1 libgpg-error0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz-subset0 libharfbuzz0b libhiredis1.1.0 libhsa-runtime64-1 libhts3t64 libhtscodecs2 libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libice6 libicu78 libidn2-0 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libllvm21 libmunge2 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libngtcp2-crypto-ossl0 libnl-3-200 libnl-route-3-200 libnuma1 libonnx1l libopenjp2-7 libopenmpi40 libp11-kit0 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpciaccess0 libpixman-1-0 libpmix2t64 libpng16-16t64 libproc2-0 libprotobuf-lite32t64 libprotobuf32t64 libpsl5t64 libpsm2-2 libpthreadpool0 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.8 librdmacm1t64 libreadline8t64 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsleef3 libsm6 libsqlite3-0 libssh2-1t64 libsvtav1enc4 libsystemd-shared libtasn1-6 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libtensorpipe0 libtext-charwidth-perl libtext-wrapi18n-perl libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtorch-test libtorch2.12 libucc1 libucx0 libunistring5 libuv1t64 libvulkan1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxnnpack0.20241108 libxnvctrl0 libxrender1 libxslt1.1 libxss1 libxt6t64 libyaml-0-2 libyuv0 libz3-4 libze1 libzopfli1 media-types netbase ocl-icd-libopencl1 openssl procps python-matplotlib-data python3 python3-apricot-select python3-attr python3-autocommand python3-biopython python3-brotli python3-build python3-cairo python3-certifi python3-chardet python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-decorator python3-expecttest python3-filelock python3-fonttools python3-freetype python3-fsspec python3-hypothesis python3-idna python3-inflect python3-iniconfig python3-jaraco.context python3-jaraco.functools python3-jaraco.text python3-jinja2 python3-joblib python3-kiwisolver python3-llvmlite python3-lxml python3-lz4 python3-markupsafe python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-networkx python3-numba python3-numpy python3-numpy-dev python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pil.imagetk python3-pip python3-pkg-resources python3-pluggy python3-pomegranate python3-psutil python3-pyfaidx python3-pygments python3-pyparsing python3-pyproject-hooks python3-pysam python3-pytest python3-pytz python3-reportlab python3-requests python3-rlpycairo python3-scipy python3-setuptools python3-six python3-sklearn python3-sklearn-lib python3-sortedcontainers python3-sympy python3-threadpoolctl python3-tk python3-torch python3-tqdm python3-typeguard python3-typing-extensions python3-ufolib2 python3-uharfbuzz python3-unicodedata2 python3-urllib3 python3-wheel python3-yaml python3-zipp python3-zopfli python3.13 python3.13-minimal python3.13-tk python3.14-tk r-base-core r-bioc-biocgenerics r-bioc-dnacopy readline-common sensible-utils sgml-base systemd ucf unicode-data unzip w3c-sgml-lib x11-common xdg-utils xfonts-encodings xfonts-utils xml-core zip Suggested packages: fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre libbenchmark-tools fuse3 rng-tools low-memory-monitor gnutls-bin krb5-doc krb5-user libhwloc-contrib-plugins liblcms2-utils pciutils libarchive13t64 libbpf1 libcryptsetup12 libdw1t64 libfido2-1 libpwquality1 libqrencode4 libtss2-esys-3.0.2-0t64 libtss2-mu-4.0.1-0t64 libtss2-rc0t64 libtss2-tcti-device0t64 tcl8.6 tk8.6 opencl-icd 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-igraph raxml samtools t-coffee wise python-build-doc python-charset-normalizer-doc python-cycler-doc python-fsspec-doc python-hypothesis-doc python-jinja2-doc python-joblib-doc llvmlite-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-pyqt6 python3-sip python3-tornado texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 nvidia-cuda-toolkit gcc gfortran python-numpy-doc python3-dev python-pandas-doc python3-statsmodels python-pil-doc python-pomegranate-doc python-pygments-doc ttf-bitstream-vera python-pyparsing-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm python3-cryptography python3-openssl python3-socks python-requests-doc python-scipy-doc python-setuptools-doc python-sklearn-doc python-sortedcontainers-doc texlive-fonts-extra python-sympy-doc blt tix python3-backports.zstd | python3-supported-min python3.13-venv python3.13-doc binutils binfmt-support elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html readline-doc sgml-base-doc systemd-container systemd-homed systemd-userdbd systemd-boot systemd-resolved systemd-repart libtss2-tcti-device0 polkitd debhelper Recommended packages: libclang-rt-21-dev libglib2.0-data shared-mime-info xdg-user-dirs libgpg-error-l10n krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules libapparmor1 libkmod2 mesa-vulkan-drivers | vulkan-icd psmisc linux-sysctl-defaults python-biopython-doc ncbi-blast+ python3-skia-pathops git python3-dask python3-distributed python3-dropbox python3-libarchive-c python3-paramiko python3-pygit2 python3-click python3-babel python3-bs4 python3-cssselect python3-html5lib python3-gdal python3-pydot python3-pygraphviz numba-doc python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-tables python3-olefile build-essential python3-dev libjs-sphinxdoc g++ | c++-compiler python3-pooch isympy-common libtorch-dev ninja-build pybind11-dev r-recommended r-base-dev r-doc-html default-dbus-system-bus | dbus-system-bus systemd-timesyncd | time-daemon systemd-cryptsetup libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: ca-certificates cnvkit fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono fonts-lyx fonts-urw-base35 ibverbs-providers libabsl20260107 libamd-comgr3 libamdhip64-6 libaom3 libatomic1 libavif16 libbenchmark1.9.1 libblas3 libbrotli1 libcairo2 libclang-common-21-dev libcom-err2 libcpp-httplib0.41 libcpuinfo0 libcurl3t64-gnutls libcurl4t64 libdatrie1 libdav1d7 libdeflate0 libdnnl3.6 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libexpat1 libfabric1 libffi8 libfmt10 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libfuse3-4 libgav1-2 libgcrypt20 libgfortran5 libglib2.0-0t64 libgloo0 libgnutls30t64 libgomp1 libgpg-error0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz-subset0 libharfbuzz0b libhiredis1.1.0 libhsa-runtime64-1 libhts3t64 libhtscodecs2 libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libice6 libicu78 libidn2-0 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libllvm21 libmunge2 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libngtcp2-crypto-ossl0 libnl-3-200 libnl-route-3-200 libnuma1 libonnx1l libopenjp2-7 libopenmpi40 libp11-kit0 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpciaccess0 libpixman-1-0 libpmix2t64 libpng16-16t64 libproc2-0 libprotobuf-lite32t64 libprotobuf32t64 libpsl5t64 libpsm2-2 libpthreadpool0 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.8 librdmacm1t64 libreadline8t64 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsleef3 libsm6 libsqlite3-0 libssh2-1t64 libsvtav1enc4 libsystemd-shared libtasn1-6 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libtensorpipe0 libtext-charwidth-perl libtext-wrapi18n-perl libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtorch-test libtorch2.12 libucc1 libucx0 libunistring5 libuv1t64 libvulkan1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxnnpack0.20241108 libxnvctrl0 libxrender1 libxslt1.1 libxss1 libxt6t64 libyaml-0-2 libyuv0 libz3-4 libze1 libzopfli1 media-types netbase ocl-icd-libopencl1 openssl procps python-matplotlib-data python3 python3-apricot-select python3-attr python3-autocommand python3-biopython python3-brotli python3-build python3-cairo python3-certifi python3-chardet python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-decorator python3-expecttest python3-filelock python3-fonttools python3-freetype python3-fsspec python3-hypothesis python3-idna python3-inflect python3-iniconfig python3-jaraco.context python3-jaraco.functools python3-jaraco.text python3-jinja2 python3-joblib python3-kiwisolver python3-llvmlite python3-lxml python3-lz4 python3-markupsafe python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-networkx python3-numba python3-numpy python3-numpy-dev python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pil.imagetk python3-pip python3-pkg-resources python3-pluggy python3-pomegranate python3-psutil python3-pyfaidx python3-pygments python3-pyparsing python3-pyproject-hooks python3-pysam python3-pytest python3-pytz python3-reportlab python3-requests python3-rlpycairo python3-scipy python3-setuptools python3-six python3-sklearn python3-sklearn-lib python3-sortedcontainers python3-sympy python3-threadpoolctl python3-tk python3-torch python3-tqdm python3-typeguard python3-typing-extensions python3-ufolib2 python3-uharfbuzz python3-unicodedata2 python3-urllib3 python3-wheel python3-yaml python3-zipp python3-zopfli python3.13 python3.13-minimal python3.13-tk python3.14-tk r-base-core r-bioc-biocgenerics r-bioc-dnacopy readline-common sensible-utils sgml-base systemd ucf unicode-data unzip w3c-sgml-lib x11-common xdg-utils xfonts-encodings xfonts-utils xml-core zip 0 upgraded, 283 newly installed, 0 to remove and 0 not upgraded. Need to get 441 MB of archives. After this operation, 1957 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 libsystemd-shared amd64 260.1-1 [2398 kB] Get:2 http://deb.debian.org/debian sid/main amd64 systemd amd64 260.1-1 [3299 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.8.0-2 [116 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libpython3.13-minimal amd64 3.13.12-1 [866 kB] Get:5 http://deb.debian.org/debian sid/main amd64 python3.13-minimal amd64 3.13.12-1 [2267 kB] Get:6 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.13.9-3+b1 [25.4 kB] Get:7 http://deb.debian.org/debian sid/main amd64 media-types all 14.0.0 [30.8 kB] Get:8 http://deb.debian.org/debian sid/main amd64 netbase all 6.5 [12.4 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.5.2-4 [25.2 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.6+20251231-1+b1 [136 kB] Get:11 http://deb.debian.org/debian sid/main amd64 readline-common all 8.3-4 [74.8 kB] Get:12 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Get:23 http://deb.debian.org/debian sid/main amd64 libproc2-0 amd64 2:4.0.4-9+b2 [63.8 kB] Get:24 http://deb.debian.org/debian sid/main amd64 procps amd64 2:4.0.4-9+b2 [880 kB] Get:25 http://deb.debian.org/debian sid/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:26 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.6.2-1 [1517 kB] Get:27 http://deb.debian.org/debian sid/main amd64 ca-certificates all 20260223 [158 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libtext-charwidth-perl amd64 0.04-12 [8996 B] Get:29 http://deb.debian.org/debian sid/main amd64 libtext-wrapi18n-perl all 0.06-11 [7788 B] Get:30 http://deb.debian.org/debian sid/main amd64 ucf all 3.0053 [41.9 kB] Get:31 http://deb.debian.org/debian sid/main amd64 python3-charset-normalizer amd64 3.4.7-1 [245 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libtcl8.6 amd64 8.6.18+dfsg-1 [1053 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.2.0-3 [320 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libpng16-16t64 amd64 1.6.58-1 [289 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libfreetype6 amd64 2.14.3+dfsg-1 [493 kB] Get:36 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-mono all 2.37-9 [488 kB] Get:37 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-core all 2.37-9 [840 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libfontenc1 amd64 1:1.1.8-1+b3 [23.4 kB] Get:39 http://deb.debian.org/debian sid/main amd64 x11-common all 1:7.7+26 [217 kB] Get:40 http://deb.debian.org/debian sid/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get:41 http://deb.debian.org/debian sid/main amd64 xfonts-utils amd64 1:7.7+7 [93.3 kB] Get:42 http://deb.debian.org/debian sid/main amd64 fonts-urw-base35 all 20200910-9 [10.8 MB] Get:43 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.17.1-5 [56.1 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.17.1-5 [132 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libxau6 amd64 1:1.0.11-1+b2 [20.7 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libxdmcp6 amd64 1:1.1.5-2+b1 [28.2 kB] Get:47 http://deb.debian.org/debian sid/main amd64 libxcb1 amd64 1.17.0-2+b2 [144 kB] Get:48 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.13-1 [346 kB] Get:49 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.13-1 [829 kB] Get:50 http://deb.debian.org/debian sid/main amd64 libxrender1 amd64 1:0.9.12-1+b2 [27.7 kB] Get:51 http://deb.debian.org/debian sid/main amd64 libxft2 amd64 2.3.6-1+b5 [54.8 kB] Get:52 http://deb.debian.org/debian sid/main amd64 libxext6 amd64 2:1.3.4-1+b4 [50.7 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libxss1 amd64 1:1.2.3-1+b4 [17.0 kB] Get:54 http://deb.debian.org/debian sid/main amd64 libtk8.6 amd64 8.6.18-1 [801 kB] Get:55 http://deb.debian.org/debian sid/main amd64 python3.13-tk amd64 3.13.12-1 [109 kB] Get:56 http://deb.debian.org/debian 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sid/main amd64 libavif16 amd64 1.4.1-1+b1 [147 kB] Get:68 http://deb.debian.org/debian sid/main amd64 libimagequant0 amd64 4.4.1-1+b2 [255 kB] Get:69 http://deb.debian.org/debian sid/main amd64 liblcms2-2 amd64 2.19.1-1 [164 kB] Get:70 http://deb.debian.org/debian sid/main amd64 libopenjp2-7 amd64 2.5.4-1.1 [205 kB] Get:71 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.16-5+b1 [26.2 kB] Get:72 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 16.1.0-1 [10.4 kB] Get:73 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.88.1-2 [1536 kB] Get:74 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-13 [75.9 kB] Get:75 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 12.3.2-2+b2 [513 kB] Get:76 http://deb.debian.org/debian sid/main amd64 libraqm0 amd64 0.10.5-1 [13.6 kB] Get:77 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.23-2+b2 [48.3 kB] Get:78 http://deb.debian.org/debian sid/main amd64 libjbig0 amd64 2.1-6.1+b3 [32.2 kB] Get:79 http://deb.debian.org/debian sid/main amd64 liblerc4 amd64 4.1.0+ds-1 [199 kB] Get:80 http://deb.debian.org/debian sid/main amd64 libsharpyuv0 amd64 1.5.0-0.1+b2 [115 kB] Get:81 http://deb.debian.org/debian sid/main amd64 libwebp7 amd64 1.5.0-0.1+b2 [335 kB] Get:82 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.7.1-2 [357 kB] Get:83 http://deb.debian.org/debian sid/main amd64 libwebpdemux2 amd64 1.5.0-0.1+b2 [113 kB] Get:84 http://deb.debian.org/debian sid/main amd64 libwebpmux3 amd64 1.5.0-0.1+b2 [126 kB] Get:85 http://deb.debian.org/debian sid/main amd64 python3-pil amd64 12.2.0-1 [558 kB] Get:86 http://deb.debian.org/debian sid/main amd64 libpixman-1-0 amd64 0.46.4-1+b2 [259 kB] Get:87 http://deb.debian.org/debian sid/main amd64 libxcb-render0 amd64 1.17.0-2+b2 [115 kB] Get:88 http://deb.debian.org/debian sid/main amd64 libxcb-shm0 amd64 1.17.0-2+b2 [105 kB] Get:89 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.4-3+b1 [543 kB] Get:90 http://deb.debian.org/debian sid/main amd64 python3-cairo amd64 1.27.0-2+b1 [132 kB] Get:91 http://deb.debian.org/debian sid/main amd64 python3-freetype all 2.5.1-2 [89.4 kB] Get:92 http://deb.debian.org/debian sid/main amd64 python3-rlpycairo all 0.3.0-4 [10.1 kB] Get:93 http://deb.debian.org/debian sid/main amd64 libharfbuzz-subset0 amd64 12.3.2-2+b2 [574 kB] Get:94 http://deb.debian.org/debian sid/main amd64 python3-uharfbuzz amd64 0.53.3-1+b1 [219 kB] Get:95 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-extra all 2.37-9 [1791 kB] Get:96 http://deb.debian.org/debian sid/main amd64 python3-reportlab all 4.5.1-1 [1175 kB] Get:97 http://deb.debian.org/debian sid/main amd64 sgml-base all 1.31+nmu1 [10.9 kB] Get:98 http://deb.debian.org/debian sid/main amd64 xml-core all 0.20 [20.0 kB] Get:99 http://deb.debian.org/debian sid/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get:100 http://deb.debian.org/debian sid/main amd64 python3-biopython amd64 1.87+dfsg-1 [1629 kB] Get:101 http://deb.debian.org/debian sid/main amd64 fonts-lyx all 2.5.1-1 [190 kB] Get:102 http://deb.debian.org/debian sid/main amd64 python-matplotlib-data all 3.10.7+dfsg1-4 [2733 kB] Get:103 http://deb.debian.org/debian sid/main amd64 python3-dateutil all 2.9.0-4 [79.4 kB] Get:104 http://deb.debian.org/debian sid/main amd64 python3-pyparsing all 3.3.2-2 [165 kB] Get:105 http://deb.debian.org/debian sid/main amd64 python3-contourpy amd64 1.3.3-1+b1 [295 kB] Get:106 http://deb.debian.org/debian sid/main amd64 python3-cycler all 0.12.1-2 [9616 B] Get:107 http://deb.debian.org/debian sid/main amd64 python3-brotli amd64 1.2.0-3 [336 kB] Get:108 http://deb.debian.org/debian sid/main amd64 libxml2-16 amd64 2.15.2+dfsg-0.1 [641 kB] Get:109 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.61-2 [89.2 kB] Get:110 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.12.2-1 [903 kB] Get:111 http://deb.debian.org/debian sid/main amd64 libxslt1.1 amd64 1.1.45-0.1 [158 kB] Get:112 http://deb.debian.org/debian sid/main amd64 python3-lxml amd64 6.1.0-1 [2232 kB] Get:113 http://deb.debian.org/debian sid/main amd64 python3-lz4 amd64 4.4.5+dfsg-1 [26.0 kB] Get:114 http://deb.debian.org/debian sid/main amd64 python3-decorator all 5.2.1-2 [33.0 kB] Get:115 http://deb.debian.org/debian sid/main amd64 libqhull-r8.0 amd64 2020.2-9 [248 kB] Get:116 http://deb.debian.org/debian sid/main amd64 python3-scipy amd64 1.16.3-4 [18.6 MB] Get:117 http://deb.debian.org/debian sid/main amd64 python3-mpmath all 1.4.1-2 [448 kB] Get:118 http://deb.debian.org/debian sid/main amd64 python3-sympy all 1.14.0-3 [4226 kB] Get:119 http://deb.debian.org/debian sid/main amd64 python3-attr all 26.1.0-1 [72.2 kB] Get:120 http://deb.debian.org/debian sid/main amd64 python3-ufolib2 all 0.18.1+dfsg1-1 [33.2 kB] Get:121 http://deb.debian.org/debian sid/main amd64 python3-unicodedata2 amd64 17.0.1+ds-1 [327 kB] Get:122 http://deb.debian.org/debian sid/main amd64 libzopfli1 amd64 1.0.3-3 [106 kB] Get:123 http://deb.debian.org/debian sid/main amd64 python3-zopfli amd64 0.4.1-1 [10.7 kB] Get:124 http://deb.debian.org/debian sid/main amd64 unicode-data all 17.0.0-2 [9354 kB] Get:125 http://deb.debian.org/debian sid/main amd64 python3-fonttools amd64 4.62.1-7 [1682 kB] Get:126 http://deb.debian.org/debian sid/main amd64 python3-kiwisolver amd64 1.5.0-1 [72.4 kB] Get:127 http://deb.debian.org/debian sid/main amd64 python3-packaging all 26.0-1 [64.3 kB] Get:128 http://deb.debian.org/debian sid/main amd64 python3-matplotlib amd64 3.10.7+dfsg1-4 [22.8 MB] Get:129 http://deb.debian.org/debian sid/main amd64 python3-pytz all 2025.2-6 [31.2 kB] Get:130 http://deb.debian.org/debian sid/main amd64 python3-pandas-lib amd64 2.3.3+dfsg-3+b1 [6581 kB] Get:131 http://deb.debian.org/debian sid/main amd64 python3-pandas all 2.3.3+dfsg-3 [2935 kB] Get:132 http://deb.debian.org/debian sid/main amd64 python3-llvmlite amd64 0.47.0-0.1 [22.9 MB] Get:133 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 16.1.0-1 [151 kB] Get:134 http://deb.debian.org/debian sid/main amd64 libhwloc15 amd64 2.13.0-2 [165 kB] Get:135 http://deb.debian.org/debian sid/main amd64 libtbbbind-2-5 amd64 2022.3.0-2 [14.6 kB] Get:136 http://deb.debian.org/debian sid/main amd64 libtbbmalloc2 amd64 2022.3.0-2 [51.0 kB] Get:137 http://deb.debian.org/debian sid/main amd64 libtbb12 amd64 2022.3.0-2 [97.8 kB] Get:138 http://deb.debian.org/debian sid/main amd64 python3-numba amd64 0.65.1+dfsg-1 [1807 kB] Get:139 http://deb.debian.org/debian sid/main amd64 python3-iniconfig all 2.1.0-2 [7540 B] Get:140 http://deb.debian.org/debian sid/main amd64 python3-pluggy all 1.6.0-2 [27.2 kB] Get:141 http://deb.debian.org/debian sid/main amd64 python3-pygments all 2.19.2+dfsg-1 [847 kB] Get:142 http://deb.debian.org/debian sid/main amd64 python3-pytest all 9.0.3-1 [273 kB] Get:143 http://deb.debian.org/debian sid/main amd64 python3-tqdm all 4.67.3-1 [91.8 kB] Get:144 http://deb.debian.org/debian sid/main amd64 python3-apricot-select all 0.6.1-1 [27.6 kB] Get:145 http://deb.debian.org/debian sid/main amd64 python3-networkx all 3.4.2-5 [23.9 MB] Get:146 http://deb.debian.org/debian sid/main amd64 python3-sklearn-lib amd64 1.8.0+dfsg-4 [4194 kB] Get:147 http://deb.debian.org/debian sid/main amd64 python3-joblib all 1.5.2-1 [222 kB] Get:148 http://deb.debian.org/debian sid/main amd64 python3-threadpoolctl all 3.1.0-1 [21.2 kB] Get:149 http://deb.debian.org/debian sid/main amd64 python3-sklearn all 1.8.0+dfsg-4 [2652 kB] Get:150 http://deb.debian.org/debian sid/main amd64 libcpp-httplib0.41 amd64 0.41.0+ds-3 [291 kB] Get:151 http://deb.debian.org/debian sid/main amd64 libcpuinfo0 amd64 0.0~git20250905.877328f-1+b1 [22.5 kB] Get:152 http://deb.debian.org/debian sid/main amd64 libdnnl3.6 amd64 3.9.1+ds-2 [7829 kB] Get:153 http://deb.debian.org/debian sid/main amd64 libfmt10 amd64 10.1.1+ds1-4+b2 [126 kB] Get:154 http://deb.debian.org/debian sid/main amd64 libhiredis1.1.0 amd64 1.2.0-6+b4 [51.0 kB] Get:155 http://deb.debian.org/debian sid/main amd64 libnl-3-200 amd64 3.12.0-2+b1 [62.2 kB] Get:156 http://deb.debian.org/debian sid/main amd64 libnl-route-3-200 amd64 3.12.0-2+b1 [200 kB] Get:157 http://deb.debian.org/debian sid/main amd64 libibverbs1 amd64 63.0-1 [62.6 kB] Get:158 http://deb.debian.org/debian sid/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b2 [134 kB] Get:159 http://deb.debian.org/debian sid/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b2 [54.3 kB] Get:160 http://deb.debian.org/debian sid/main amd64 ibverbs-providers amd64 63.0-1 [383 kB] Get:161 http://deb.debian.org/debian sid/main amd64 libnuma1 amd64 2.0.19-1+b2 [22.0 kB] Get:162 http://deb.debian.org/debian sid/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get:163 http://deb.debian.org/debian sid/main amd64 librdmacm1t64 amd64 63.0-1 [71.7 kB] Get:164 http://deb.debian.org/debian sid/main amd64 libfabric1 amd64 2.1.0-1.1+b2 [716 kB] Get:165 http://deb.debian.org/debian sid/main amd64 libmunge2 amd64 0.5.18-1 [18.8 kB] Get:166 http://deb.debian.org/debian sid/main amd64 libpciaccess0 amd64 0.17-3+b4 [52.1 kB] Get:167 http://deb.debian.org/debian sid/main amd64 libxnvctrl0 amd64 535.171.04-1+b3 [14.1 kB] Get:168 http://deb.debian.org/debian sid/main amd64 libze1 amd64 1.28.2-2 [795 kB] Get:169 http://deb.debian.org/debian sid/main amd64 ocl-icd-libopencl1 amd64 2.3.4-1+b1 [42.8 kB] Get:170 http://deb.debian.org/debian sid/main amd64 libhwloc-plugins amd64 2.13.0-2 [23.5 kB] Get:171 http://deb.debian.org/debian sid/main amd64 libpmix2t64 amd64 6.0.0+really5.0.9-3+b1 [670 kB] Get:172 http://deb.debian.org/debian sid/main amd64 libedit2 amd64 3.1-20251016-1+b1 [93.3 kB] Get:173 http://deb.debian.org/debian sid/main amd64 libz3-4 amd64 4.13.3-1.1 [8644 kB] Get:174 http://deb.debian.org/debian sid/main amd64 libllvm21 amd64 1:21.1.8-7+b1 [28.2 MB] Get:175 http://deb.debian.org/debian sid/main amd64 libclang-common-21-dev amd64 1:21.1.8-7+b1 [767 kB] Get:176 http://deb.debian.org/debian sid/main amd64 libamd-comgr3 amd64 7.0.2+dfsg-3 [13.9 MB] Get:177 http://deb.debian.org/debian sid/main amd64 libdrm-common all 2.4.131-1 [9168 B] Get:178 http://deb.debian.org/debian sid/main amd64 libdrm2 amd64 2.4.131-1+b1 [38.6 kB] Get:179 http://deb.debian.org/debian sid/main amd64 libdrm-amdgpu1 amd64 2.4.131-1+b1 [23.2 kB] Get:180 http://deb.debian.org/debian sid/main amd64 libelf1t64 amd64 0.195-1 [58.1 kB] Get:181 http://deb.debian.org/debian sid/main amd64 libhsa-runtime64-1 amd64 6.4.3+dfsg-5 [678 kB] Get:182 http://deb.debian.org/debian sid/main amd64 libamdhip64-6 amd64 6.4.3-5 [9385 kB] Get:183 http://deb.debian.org/debian sid/main amd64 libfuse3-4 amd64 3.18.2-2 [103 kB] Get:184 http://deb.debian.org/debian sid/main amd64 libibumad3 amd64 63.0-1 [28.3 kB] Get:185 http://deb.debian.org/debian sid/main amd64 libibmad5 amd64 63.0-1 [43.0 kB] Get:186 http://deb.debian.org/debian sid/main amd64 libucx0 amd64 1.20.1~rc2-1 [955 kB] Get:187 http://deb.debian.org/debian sid/main amd64 libucc1 amd64 1.7.0~rc1-1 [329 kB] Get:188 http://deb.debian.org/debian sid/main amd64 libopenmpi40 amd64 5.0.10-1 [2018 kB] Get:189 http://deb.debian.org/debian sid/main amd64 libuv1t64 amd64 1.51.0-2+b2 [155 kB] Get:190 http://deb.debian.org/debian sid/main amd64 libgloo0 amd64 0.0~git20250912.d97133a-2 [284 kB] Get:191 http://deb.debian.org/debian sid/main amd64 libprotobuf-lite32t64 amd64 3.21.12-15+b1 [279 kB] Get:192 http://deb.debian.org/debian sid/main amd64 libonnx1l amd64 1.20.0-4 [1382 kB] Get:193 http://deb.debian.org/debian sid/main amd64 libprotobuf32t64 amd64 3.21.12-15+b1 [986 kB] Get:194 http://deb.debian.org/debian sid/main amd64 libpthreadpool0 amd64 0.0~git20251020.0e6ca13-1.1 [46.4 kB] Get:195 http://deb.debian.org/debian sid/main amd64 libsleef3 amd64 3.9.0-1 [703 kB] Get:196 http://deb.debian.org/debian sid/main amd64 libtensorpipe0 amd64 0.0~git20250815.af0118d-1+b1 [576 kB] Get:197 http://deb.debian.org/debian sid/main amd64 libvulkan1 amd64 1.4.341.0-1 [141 kB] Get:198 http://deb.debian.org/debian sid/main amd64 libxnnpack0.20241108 amd64 0.0~git20241108.4ea82e5-2+b1 [650 kB] Get:199 http://deb.debian.org/debian sid/main amd64 libtorch2.12 amd64 2.12.0+dfsg2-1 [64.5 MB] Get:200 http://deb.debian.org/debian sid/main amd64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Get:201 http://deb.debian.org/debian sid/main amd64 python3-wheel all 0.47.0-1 [26.9 kB] Get:202 http://deb.debian.org/debian sid/main amd64 python3-build all 1.4.0-1 [38.8 kB] Get:203 http://deb.debian.org/debian sid/main amd64 python3-sortedcontainers all 2.4.0-2 [31.9 kB] Get:204 http://deb.debian.org/debian sid/main amd64 python3-hypothesis all 6.152.4-1 [362 kB] Get:205 http://deb.debian.org/debian sid/main amd64 python3-expecttest all 0.3.0-1 [9044 B] Get:206 http://deb.debian.org/debian sid/main amd64 python3-filelock all 3.29.0-1 [27.3 kB] Get:207 http://deb.debian.org/debian sid/main amd64 python3-fsspec all 2025.12.0-1 [228 kB] Get:208 http://deb.debian.org/debian sid/main amd64 python3-markupsafe amd64 3.0.3-1+b1 [14.3 kB] Get:209 http://deb.debian.org/debian sid/main amd64 python3-jinja2 all 3.1.6-2 [106 kB] Get:210 http://deb.debian.org/debian sid/main amd64 python3-pip all 26.0.1+dfsg-1 [1390 kB] Get:211 http://deb.debian.org/debian sid/main amd64 python3-psutil amd64 7.1.0-1 [224 kB] Get:212 http://deb.debian.org/debian sid/main amd64 python3-certifi all 2026.4.22+ds-1 [9684 B] Get:213 http://deb.debian.org/debian sid/main amd64 python3-idna all 3.11-1 [41.7 kB] Get:214 http://deb.debian.org/debian sid/main amd64 python3-urllib3 all 2.6.3-2 [118 kB] Get:215 http://deb.debian.org/debian sid/main amd64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get:216 http://deb.debian.org/debian sid/main amd64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Get:217 http://deb.debian.org/debian sid/main amd64 python3-autocommand all 2.2.2-4 [13.7 kB] Get:218 http://deb.debian.org/debian sid/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get:219 http://deb.debian.org/debian sid/main amd64 python3-typing-extensions all 4.15.0-2 [92.5 kB] Get:220 http://deb.debian.org/debian sid/main amd64 python3-typeguard all 4.4.4-2 [37.2 kB] Get:221 http://deb.debian.org/debian sid/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Get:222 http://deb.debian.org/debian sid/main amd64 python3-jaraco.context all 6.0.1-2 [8184 B] Get:223 http://deb.debian.org/debian sid/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get:224 http://deb.debian.org/debian sid/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get:225 http://deb.debian.org/debian sid/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get:226 http://deb.debian.org/debian sid/main amd64 python3-zipp all 3.23.0-1 [11.0 kB] Get:227 http://deb.debian.org/debian sid/main amd64 python3-setuptools all 78.1.1-0.1 [738 kB] Get:228 http://deb.debian.org/debian sid/main amd64 python3-six all 1.17.0-2 [16.6 kB] Get:229 http://deb.debian.org/debian sid/main amd64 libyaml-0-2 amd64 0.2.5-2+b1 [53.8 kB] Get:230 http://deb.debian.org/debian sid/main amd64 python3-yaml amd64 6.0.3-1 [186 kB] Get:231 http://deb.debian.org/debian sid/main amd64 libbenchmark1.9.1 amd64 1.9.1-1+b2 [134 kB] Get:232 http://deb.debian.org/debian sid/main amd64 libtorch-test amd64 2.12.0+dfsg2-1 [8524 kB] Get:233 http://deb.debian.org/debian sid/main amd64 python3-torch amd64 2.12.0+dfsg2-1 [11.3 MB] Get:234 http://deb.debian.org/debian sid/main amd64 python3-pomegranate amd64 1.1.0-1 [42.2 kB] Get:235 http://deb.debian.org/debian sid/main amd64 python3-pyfaidx all 0.8.1.3-2 [29.1 kB] Get:236 http://deb.debian.org/debian sid/main amd64 libnghttp3-9 amd64 1.15.0-1 [67.2 kB] Get:237 http://deb.debian.org/debian sid/main amd64 libngtcp2-16 amd64 1.22.1-1 [133 kB] Get:238 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.4.2-1 [480 kB] Get:239 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.8-5 [109 kB] Get:240 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.26.2-2 [470 kB] Get:241 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.21.0-2+b1 [49.3 kB] Get:242 http://deb.debian.org/debian sid/main amd64 libgnutls30t64 amd64 3.8.13-1 [1546 kB] Get:243 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.22.1-2.1 [30.9 kB] Get:244 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.4-1 [19.2 kB] Get:245 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.22.1-2.1 [78.8 kB] Get:246 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-6+b2 [9348 B] Get:247 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.22.1-2.1 [335 kB] Get:248 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.22.1-2.1 [137 kB] Get:249 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-11 [17.2 kB] Get:250 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-11 [55.2 kB] Get:251 http://deb.debian.org/debian sid/main amd64 libldap2 amd64 2.6.10+dfsg-1+b2 [188 kB] Get:252 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.69.0-1 [89.0 kB] Get:253 http://deb.debian.org/debian sid/main amd64 libngtcp2-crypto-gnutls8 amd64 1.22.1-1 [20.8 kB] Get:254 http://deb.debian.org/debian sid/main amd64 libpsl5t64 amd64 0.21.5-1 [59.9 kB] Get:255 http://deb.debian.org/debian sid/main amd64 libssh2-1t64 amd64 1.11.1-3 [244 kB] Get:256 http://deb.debian.org/debian sid/main amd64 libcurl3t64-gnutls amd64 8.20.0-2 [403 kB] Get:257 http://deb.debian.org/debian sid/main amd64 libhtscodecs2 amd64 1.6.6-1 [101 kB] Get:258 http://deb.debian.org/debian sid/main amd64 libhts3t64 amd64 1.22.1+ds2-1+b2 [475 kB] Get:259 http://deb.debian.org/debian sid/main amd64 python3-pysam amd64 0.23.3+ds-2+b1 [4456 kB] Get:260 http://deb.debian.org/debian sid/main amd64 zip amd64 3.0-15 [235 kB] Get:261 http://deb.debian.org/debian sid/main amd64 unzip amd64 6.0-29 [173 kB] Get:262 http://deb.debian.org/debian sid/main amd64 libpaper2 amd64 2.2.5-0.4 [16.6 kB] Get:263 http://deb.debian.org/debian sid/main amd64 libpaper-utils amd64 2.2.5-0.4 [15.8 kB] Get:264 http://deb.debian.org/debian sid/main amd64 xdg-utils all 1.2.1-2 [75.8 kB] Get:265 http://deb.debian.org/debian sid/main amd64 libngtcp2-crypto-ossl0 amd64 1.22.1-1 [23.3 kB] Get:266 http://deb.debian.org/debian sid/main amd64 libcurl4t64 amd64 8.20.0-2 [408 kB] Get:267 http://deb.debian.org/debian sid/main amd64 libicu78 amd64 78.3-2 [10.0 MB] Get:268 http://deb.debian.org/debian sid/main amd64 fontconfig amd64 2.17.1-5 [191 kB] Get:269 http://deb.debian.org/debian sid/main amd64 libthai-data all 0.1.30-1 [172 kB] Get:270 http://deb.debian.org/debian sid/main amd64 libdatrie1 amd64 0.2.14-1+b1 [39.5 kB] Get:271 http://deb.debian.org/debian sid/main amd64 libthai0 amd64 0.1.30-1+b1 [52.1 kB] Get:272 http://deb.debian.org/debian sid/main amd64 libpango-1.0-0 amd64 1.57.1-2 [224 kB] Get:273 http://deb.debian.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.57.1-2 [52.8 kB] Get:274 http://deb.debian.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.57.1-2 [33.8 kB] Get:275 http://deb.debian.org/debian sid/main amd64 libtirpc-common all 1.3.7+ds-1 [10.0 kB] Get:276 http://deb.debian.org/debian sid/main amd64 libtirpc3t64 amd64 1.3.7+ds-1 [82.9 kB] Get:277 http://deb.debian.org/debian sid/main amd64 libice6 amd64 2:1.1.1-1+b2 [66.8 kB] Get:278 http://deb.debian.org/debian sid/main amd64 libsm6 amd64 2:1.2.6-1+b2 [37.9 kB] Get:279 http://deb.debian.org/debian sid/main amd64 libxt6t64 amd64 1:1.2.1-1.3+b2 [191 kB] Get:280 http://deb.debian.org/debian sid/main amd64 r-base-core amd64 4.6.0-4 [29.7 MB] Get:281 http://deb.debian.org/debian sid/main amd64 r-bioc-biocgenerics all 0.52.0-3 [626 kB] Get:282 http://deb.debian.org/debian sid/main amd64 r-bioc-dnacopy amd64 1.80.0-3 [498 kB] Get:283 http://deb.debian.org/debian sid/main amd64 cnvkit all 0.9.13-1 [20.0 MB] Preconfiguring packages ... 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Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.7+ds-1) ... Selecting previously unselected package libice6:amd64. Preparing to unpack .../260-libice6_2%3a1.1.1-1+b2_amd64.deb ... Unpacking libice6:amd64 (2:1.1.1-1+b2) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../261-libsm6_2%3a1.2.6-1+b2_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.6-1+b2) ... Selecting previously unselected package libxt6t64:amd64. Preparing to unpack .../262-libxt6t64_1%3a1.2.1-1.3+b2_amd64.deb ... Unpacking libxt6t64:amd64 (1:1.2.1-1.3+b2) ... Selecting previously unselected package r-base-core. Preparing to unpack .../263-r-base-core_4.6.0-4_amd64.deb ... Unpacking r-base-core (4.6.0-4) ... 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Setting up libprotobuf32t64:amd64 (3.21.12-15+b1) ... Setting up libxau6:amd64 (1:1.0.11-1+b2) ... Setting up libxdmcp6:amd64 (1:1.1.5-2+b1) ... Setting up libkeyutils1:amd64 (1.6.3-6+b2) ... Setting up libxcb1:amd64 (1.17.0-2+b2) ... Setting up liblerc4:amd64 (4.1.0+ds-1) ... Setting up libgpg-error0:amd64 (1.61-2) ... Setting up libdatrie1:amd64 (0.2.14-1+b1) ... Setting up libxcb-render0:amd64 (1.17.0-2+b2) ... Setting up libyaml-0-2:amd64 (0.2.5-2+b1) ... Setting up libxml2-16:amd64 (2.15.2+dfsg-0.1) ... Setting up libtirpc-common (1.3.7+ds-1) ... Setting up fonts-lyx (2.5.1-1) ... Setting up unzip (6.0-29) ... Setting up libbrotli1:amd64 (1.2.0-3) ... Setting up libedit2:amd64 (3.1-20251016-1+b1) ... Setting up libsqlite3-0:amd64 (3.46.1-9+b1) ... Setting up libuv1t64:amd64 (1.51.0-2+b2) ... 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 (1.69.0-1) ... Setting up libibumad3:amd64 (63.0-1) ... Setting up libdeflate0:amd64 (1.23-2+b2) ... Setting up libgcrypt20:amd64 (1.12.2-1) ... Setting up libqhull-r8.0:amd64 (2020.2-9) ... Setting up systemd (260.1-1) ... Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' → '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' → '/usr/lib/systemd/system/systemd-pstore.service'. Created symlink '/etc/systemd/system/autovt@.service' → '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' → '/usr/lib/systemd/system/getty@.service'. Initializing machine ID from random generator. Creating group 'lpadmin' with GID 999. Creating group 'systemd-journal' with GID 998. Creating group 'systemd-network' with GID 997. Creating user 'systemd-network' (systemd Network Management) with UID 997 and GID 997. [ESC][0;1;31m"/home" already exists and is not a directory.[ESC][0m Setting up libxcb-shm0:amd64 (1.17.0-2+b2) ... Setting up libibmad5:amd64 (63.0-1) ... Setting up libcom-err2:amd64 (1.47.4-1) ... Setting up libsleef3:amd64 (3.9.0-1) ... Setting up libgomp1:amd64 (16.1.0-1) ... Setting up libtext-wrapi18n-perl (0.06-11) ... Setting up libjbig0:amd64 (2.1-6.1+b3) ... Setting up libze1:amd64 (1.28.2-2) ... Setting up libelf1t64:amd64 (0.195-1) ... Setting up libpthreadpool0:amd64 (0.0~git20251020.0e6ca13-1.1) ... Setting up libkrb5support0:amd64 (1.22.1-2.1) ... Setting up librav1e0.8:amd64 (0.8.1-10) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-11) ... Setting up libicu78:amd64 (78.3-2) ... Setting up unicode-data (17.0.0-2) ... Setting up zip (3.0-15) ... Setting up libfontenc1:amd64 (1:1.1.8-1+b3) ... Setting up libz3-4:amd64 (4.13.3-1.1) ... Setting up libblas3:amd64 (3.12.1-7+b2) ... 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 libmunge2:amd64 (0.5.18-1) ... Setting up libjpeg62-turbo:amd64 (1:3.1.3-4) ... Setting up libzopfli1 (1.0.3-3) ... Setting up libx11-data (2:1.8.13-1) ... Setting up libtensorpipe0:amd64 (0.0~git20250815.af0118d-1+b1) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.16-5+b1) ... Setting up libimagequant0:amd64 (4.4.1-1+b2) ... Setting up libproc2-0:amd64 (2:4.0.4-9+b2) ... Setting up libunistring5:amd64 (1.4.2-1) ... Setting up fonts-dejavu-mono (2.37-9) ... Setting up libpng16-16t64:amd64 (1.6.58-1) ... Setting up libhwloc15:amd64 (2.13.0-2) ... Setting up python3-numpy-dev:amd64 (1:2.4.4+ds-2) ... Setting up libatomic1:amd64 (16.1.0-1) ... Setting up libtcl8.6:amd64 (8.6.18+dfsg-1) ... Setting up fonts-dejavu-core (2.37-9) ... Setting up libncursesw6:amd64 (6.6+20251231-1+b1) ... Setting up libk5crypto3:amd64 (1.22.1-2.1) ... Setting up libsvtav1enc4:amd64 (4.1.0+dfsg-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-11) ... Setting up libgfortran5:amd64 (16.1.0-1) ... Setting up libvulkan1:amd64 (1.4.341.0-1) ... Setting up libnghttp3-9:amd64 (1.15.0-1) ... Setting up libcpuinfo0:amd64 (0.0~git20250905.877328f-1+b1) ... Setting up libwebp7:amd64 (1.5.0-0.1+b2) ... Setting up libffi8:amd64 (3.5.2-4) ... Setting up libxnnpack0.20241108:amd64 (0.0~git20241108.4ea82e5-2+b1) ... Setting up fonts-dejavu-extra (2.37-9) ... Setting up libnuma1:amd64 (2.0.19-1+b2) ... Setting up libdav1d7:amd64 (1.5.3-1+b2) ... Setting up sensible-utils (0.0.26) ... Setting up ocl-icd-libopencl1:amd64 (2.3.4-1+b1) ... Setting up libtiff6:amd64 (4.7.1-2) ... Setting up libbenchmark1.9.1:amd64 (1.9.1-1+b2) ... Setting up procps (2:4.0.4-9+b2) ... Setting up libxslt1.1:amd64 (1.1.45-0.1) ... Setting up libnl-3-200:amd64 (3.12.0-2+b1) ... Setting up libpsm2-2 (11.2.185-2.1) ... Setting up libtasn1-6:amd64 (4.21.0-2+b1) ... Setting up libopenjp2-7:amd64 (2.5.4-1.1) ... Setting up libx11-6:amd64 (2:1.8.13-1) ... Setting up libthai-data (0.1.30-1) ... Setting up libabsl20260107:amd64 (20260107.0-5) ... Setting up netbase (6.5) ... Setting up libngtcp2-16:amd64 (1.22.1-1) ... Setting up sgml-base (1.31+nmu1) ... Setting up libkrb5-3:amd64 (1.22.1-2.1) ... Setting up libevent-core-2.1-7t64:amd64 (2.1.12-stable-10+b2) ... Setting up libclang-common-21-dev:amd64 (1:21.1.8-7+b1) ... Setting up libpaper2:amd64 (2.2.5-0.4) ... Setting up libssh2-1t64:amd64 (1.11.1-3) ... Setting up libfuse3-4:amd64 (3.18.2-2) ... Setting up python-matplotlib-data (3.10.7+dfsg1-4) ... Setting up openssl (3.6.2-1) ... Setting up libwebpmux3:amd64 (1.5.0-0.1+b2) ... Setting up libdrm-common (2.4.131-1) ... Setting up libyuv0:amd64 (0.0.1922.20260106-1+b1) ... Setting up libhiredis1.1.0:amd64 (1.2.0-6+b4) ... Setting up readline-common (8.3-4) ... Setting up xdg-utils (1.2.1-2) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libldap2:amd64 (2.6.10+dfsg-1+b2) ... Setting up libfmt10:amd64 (10.1.1+ds1-4+b2) ... Setting up libonnx1l:amd64 (1.20.0-4) ... Setting up libice6:amd64 (2:1.1.1-1+b2) ... Setting up liblapack3:amd64 (3.12.1-7+b2) ... 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 libdnnl3.6:amd64 (3.9.1+ds-2) ... Setting up libxrender1:amd64 (1:0.9.12-1+b2) ... Setting up libcpp-httplib0.41:amd64 (0.41.0+ds-3) ... Setting up libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10+b2) ... Setting up fontconfig-config (2.17.1-5) ... Setting up libwebpdemux2:amd64 (1.5.0-0.1+b2) ... Setting up libxext6:amd64 (2:1.3.4-1+b4) ... Setting up libidn2-0:amd64 (2.3.8-5) ... Setting up libpaper-utils (2.2.5-0.4) ... Setting up libtbbbind-2-5:amd64 (2022.3.0-2) ... Setting up libnl-route-3-200:amd64 (3.12.0-2+b1) ... Setting up libxnvctrl0:amd64 (535.171.04-1+b3) ... Setting up libthai0:amd64 (0.1.30-1+b1) ... Setting up ca-certificates (20260223) ... Updating certificates in /etc/ssl/certs... 144 added, 0 removed; done. Setting up libglib2.0-0t64:amd64 (2.88.1-2) ... No schema files found: doing nothing. Setting up libfreetype6:amd64 (2.14.3+dfsg-1) ... Setting up libllvm21:amd64 (1:21.1.8-7+b1) ... Setting up libp11-kit0:amd64 (0.26.2-2) ... Setting up libgssapi-krb5-2:amd64 (1.22.1-2.1) ... Setting up ucf (3.0053) ... Setting up libngtcp2-crypto-ossl0:amd64 (1.22.1-1) ... Setting up libreadline8t64:amd64 (8.3-4) ... Setting up libgav1-2:amd64 (0.20.0-2+b1) ... Setting up libdrm2:amd64 (2.4.131-1+b1) ... Setting up libamd-comgr3:amd64 (7.0.2+dfsg-3) ... Setting up xml-core (0.20) ... Setting up libharfbuzz0b:amd64 (12.3.2-2+b2) ... Setting up libxss1:amd64 (1:1.2.3-1+b4) ... Setting up libfontconfig1:amd64 (2.17.1-5) ... Setting up libsm6:amd64 (2:1.2.6-1+b2) ... Setting up libpython3.13-stdlib:amd64 (3.13.12-1) ... Setting up libpython3-stdlib:amd64 (3.13.9-3+b1) ... Setting up libdrm-amdgpu1:amd64 (2.4.131-1+b1) ... Setting up libgnutls30t64:amd64 (3.8.13-1) ... Setting up libibverbs1:amd64 (63.0-1) ... Creating group 'rdma' with GID 996. Setting up fontconfig (2.17.1-5) ... Regenerating fonts cache... done. Setting up libavif16:amd64 (1.4.1-1+b1) ... Setting up libxft2:amd64 (2.3.6-1+b5) ... Setting up libtirpc3t64:amd64 (1.3.7+ds-1) ... Setting up ibverbs-providers:amd64 (63.0-1) ... Setting up python3.13 (3.13.12-1) ... Setting up libtk8.6:amd64 (8.6.18-1) ... Setting up libpango-1.0-0:amd64 (1.57.1-2) ... Setting up libpsl5t64:amd64 (0.21.5-1) ... Setting up python3 (3.13.9-3+b1) ... Setting up libtbb12:amd64 (2022.3.0-2) ... Setting up python3-sortedcontainers (2.4.0-2) ... Setting up python3-zipp (3.23.0-1) ... Setting up python3-freetype (2.5.1-2) ... Setting up xfonts-utils (1:7.7+7) ... Setting up python3-autocommand (2.2.2-4) ... Setting up libhwloc-plugins:amd64 (2.13.0-2) ... Setting up python3-networkx (3.4.2-5) ... Setting up python3-markupsafe (3.0.3-1+b1) ... Setting up libcairo2:amd64 (1.18.4-3+b1) ... Setting up python3.13-tk (3.13.12-1) ... Setting up python3-psutil (7.1.0-1) ... Setting up python3-zopfli (0.4.1-1) ... Setting up python3-six (1.17.0-2) ... Setting up python3-llvmlite (0.47.0-0.1) ... Setting up python3-decorator (5.2.1-2) ... Setting up python3-jinja2 (3.1.6-2) ... Setting up python3-pygments (2.19.2+dfsg-1) ... Setting up python3-packaging (26.0-1) ... Setting up python3-chardet (5.2.0+dfsg-2) ... Setting up python3-pyproject-hooks (1.2.0-1) ... Setting up python3-pyparsing (3.3.2-2) ... Setting up python3-certifi (2026.4.22+ds-1) ... Setting up python3-brotli (1.2.0-3) ... Setting up libraqm0:amd64 (0.10.5-1) ... Setting up python3-cycler (0.12.1-2) ... Setting up libxt6t64:amd64 (1:1.2.1-1.3+b2) ... Setting up python3-kiwisolver (1.5.0-1) ... Setting up python3-idna (3.11-1) ... Setting up python3-typing-extensions (4.15.0-2) ... Setting up libpmix2t64:amd64 (6.0.0+really5.0.9-3+b1) ... Setting up python3-numpy (1:2.4.4+ds-2) ... Setting up python3-urllib3 (2.6.3-2) ... Setting up python3-pluggy (1.6.0-2) ... Setting up python3-lxml:amd64 (6.1.0-1) ... Setting up libhsa-runtime64-1:amd64 (6.4.3+dfsg-5) ... Setting up libharfbuzz-subset0:amd64 (12.3.2-2+b2) ... Setting up librdmacm1t64:amd64 (63.0-1) ... Setting up python3-dateutil (2.9.0-4) ... Setting up python3-contourpy (1.3.3-1+b1) ... Setting up libpangoft2-1.0-0:amd64 (1.57.1-2) ... Setting up python3-mpmath (1.4.1-2) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.22.1-1) ... Setting up libpangocairo-1.0-0:amd64 (1.57.1-2) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up python3-pyfaidx (0.8.1.3-2) ... Setting up libfabric1:amd64 (2.1.0-1.1+b2) ... Setting up python3-iniconfig (2.1.0-2) ... Setting up python3-sympy (1.14.0-3) ... Setting up python3-attr (26.1.0-1) ... Setting up python3-filelock (3.29.0-1) ... Setting up python3.14-tk (3.14.5-1) ... Setting up python3-scipy (1.16.3-4) ... Setting up python3-cairo (1.27.0-2+b1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-2) ... Setting up libcurl4t64:amd64 (8.20.0-2) ... Setting up python3-joblib (1.5.2-1) ... Setting up python3-lz4 (4.4.5+dfsg-1) ... Setting up python3-charset-normalizer (3.4.7-1) ... Setting up python3-pytest (9.0.3-1) ... Setting up python3-unicodedata2 (17.0.1+ds-1) ... Setting up python3-pandas-lib:amd64 (2.3.3+dfsg-3+b1) ... Setting up python3-hypothesis (6.152.4-1) ... Setting up python3-fsspec (2025.12.0-1) ... Setting up python3-tqdm (4.67.3-1) ... Setting up python3-typeguard (4.4.4-2) ... Setting up python3-threadpoolctl (3.1.0-1) ... Setting up libcurl3t64-gnutls:amd64 (8.20.0-2) ... Setting up python3-sklearn-lib:amd64 (1.8.0+dfsg-4) ... Setting up python3-yaml (6.0.3-1) ... Setting up python3-tk (3.13.9-3+b1) ... Setting up python3-pytz (2025.2-6) ... Setting up fonts-urw-base35 (20200910-9) ... Setting up python3-numba (0.65.1+dfsg-1) ... update-alternatives: using /usr/share/python3-numba/numba to provide /usr/bin/numba (numba) in auto mode Setting up python3-wheel (0.47.0-1) ... Setting up python3-pil:amd64 (12.2.0-1) ... Setting up python3-inflect (7.5.0-1) ... Setting up python3-pandas (2.3.3+dfsg-3) ... Setting up python3-pil.imagetk:amd64 (12.2.0-1) ... Setting up python3-rlpycairo (0.3.0-4) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up libamdhip64-6:amd64 (6.4.3-5) ... Setting up python3-requests (2.32.5+dfsg-1) ... Setting up r-base-core (4.6.0-4) ... Creating config file /etc/R/Renviron with new version Setting up python3-sklearn (1.8.0+dfsg-4) ... Setting up python3-uharfbuzz (0.53.3-1+b1) ... Setting up python3-pip (26.0.1+dfsg-1) ... Setting up python3-reportlab (4.5.1-1) ... Setting up python3-expecttest (0.3.0-1) ... Setting up libhts3t64:amd64 (1.22.1+ds2-1+b2) ... Setting up python3-build (1.4.0-1) ... Setting up python3-apricot-select (0.6.1-1) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up libucx0:amd64 (1.20.1~rc2-1) ... Setting up r-bioc-biocgenerics (0.52.0-3) ... Setting up python3-pysam (0.23.3+ds-2+b1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up libucc1:amd64 (1.7.0~rc1-1) ... Setting up r-bioc-dnacopy (1.80.0-3) ... Setting up libopenmpi40:amd64 (5.0.10-1) ... Setting up libgloo0 (0.0~git20250912.d97133a-2) ... Setting up libtorch2.12:amd64 (2.12.0+dfsg2-1) ... Setting up libtorch-test (2.12.0+dfsg2-1) ... Setting up python3-torch (2.12.0+dfsg2-1) ... Setting up python3-pomegranate (1.1.0-1) ... Setting up python3-ufolib2 (0.18.1+dfsg1-1) ... Setting up python3-fonttools (4.62.1-7) ... Setting up python3-matplotlib (3.10.7+dfsg1-4) ... Processing triggers for libc-bin (2.42-16) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.87+dfsg-1) ... Setting up cnvkit (0.9.13-1) ... Processing triggers for ca-certificates (20260223) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 2m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', '-y', 'install', 'cnvkit=0.9.13-1'] 2m3.7s INFO: Running scripts post_install 2m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_install_exceptions'] 2m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_install_exceptions'] 2m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_install_log_alternatives'] 2m3.7s DUMP: Removing 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' LOG-ALTERNATIVES: dpkg=python3: piuparts=cnvkit=0.9.13-1: /usr/bin/update-alternatives --auto /usr/bin/python3 LOG-ALTERNATIVES: dpkg=libblas3: piuparts=cnvkit=0.9.13-1: /usr/bin/update-alternatives --install /usr/lib/x86_64-linux-gnu/libblas.so.3 libblas.so.3-x86_64-linux-gnu /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 10 LOG-ALTERNATIVES: dpkg=xdg-utils: piuparts=cnvkit=0.9.13-1: /usr/bin/update-alternatives --install /usr/bin/open open /usr/bin/xdg-open 50 --slave /usr/share/man/man1/open.1.gz open.1.gz /usr/share/man/man1/xdg-open.1.gz LOG-ALTERNATIVES: dpkg=liblapack3: piuparts=cnvkit=0.9.13-1: /usr/bin/update-alternatives --install /usr/lib/x86_64-linux-gnu/liblapack.so.3 liblapack.so.3-x86_64-linux-gnu /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 10 LOG-ALTERNATIVES: dpkg=python3-numba: piuparts=cnvkit=0.9.13-1: /usr/bin/update-alternatives --install /usr/bin/numba numba /usr/share/python3-numba/numba 20 2m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_install_log_alternatives'] 2m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'systemd-tmpfiles', '--cat-config'] 2m3.7s DUMP: # /usr/lib/tmpfiles.d/20-systemd-osc-context.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. L$ /etc/profile.d/80-systemd-osc-context.sh - - - - /usr/lib/systemd/profile.d/80-systemd-osc-context.sh # /usr/lib/tmpfiles.d/20-systemd-shell-extra.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. L$ /etc/profile.d/70-systemd-shell-extra.sh - - - - /usr/lib/systemd/profile.d/70-systemd-shell-extra.sh # /usr/lib/tmpfiles.d/20-systemd-ssh-generator.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. L$ /etc/ssh/ssh_config.d/20-systemd-ssh-proxy.conf - - - - /usr/lib/systemd/ssh_config.d/20-systemd-ssh-proxy.conf d /run/sshd 0755 # /usr/lib/tmpfiles.d/20-systemd-stub.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Copy systemd-stub provided metadata such as PCR signature and public key file # from initrd into /run/, so that it will survive the initrd stage C /run/systemd/stub/profile 0444 root root - /.extra/profile C /run/systemd/stub/os-release 0444 root root - /.extra/os-release C /run/systemd/tpm2-pcr-signature.json 0444 root root - /.extra/tpm2-pcr-signature.json C /run/systemd/tpm2-pcr-public-key.pem 0444 root root - /.extra/tpm2-pcr-public-key.pem # /usr/lib/tmpfiles.d/20-systemd-varlink.conf # SPDX-License-Identifier: LGPL-2.1-or-later # See tmpfiles.d(5) for details. # Varlink AF_UNIX entrypoint socket inodes of relevant system services may be # linked into this directory, to make them "well-known". Typically, tools such # as the Varlink HTTP bridge expose services linked in here as public # interfaces. The symlink should be named after the Varlink interface to # expose. Interfaces that may be implemented by multiple services (such as # the generic "io.systemd.service") should not be symlinked here. d /run/varlink/registry/ 0755 root root # Socket activated services should use Symlinks= in the .socket unit file to # create these symlinks. If that's not applicable, consider creating the # symlinks via a tmpfiles.d/ snippet, like we do here, so that registration can # be influenced by the administrator. L /run/varlink/registry/io.systemd.Unit - - - - ../../systemd/io.systemd.Manager L /run/varlink/registry/io.systemd.Manager - - - - ../../systemd/io.systemd.Manager L /run/varlink/registry/io.systemd.Journal - - - - ../../systemd/journal/io.systemd.journal # /usr/lib/tmpfiles.d/credstore.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. d /etc/credstore 0700 root root d /etc/credstore.encrypted 0700 root root z /run/credstore 0700 root root z /run/credstore.encrypted 0700 root root # /usr/lib/tmpfiles.d/debian.conf # This file is part of the debianisation of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU General Public License as published by # the Free Software Foundation; either version 2 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details # Type Path Mode UID GID Age Argument L /run/shm - - - - /dev/shm d /run/sendsigs.omit.d 0755 root root - d /run/lock 1777 root root - - L+ /etc/mtab - - - - ../proc/self/mounts L+ /etc/default/locale - - - - ../locale.conf L+ /etc/vconsole.conf - - - - default/keyboard C! /etc/nsswitch.conf - - - - C! /etc/pam.d - - - - C! /etc/issue - - - - # /usr/lib/tmpfiles.d/home.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. Q /home 0755 - - - q /srv 0755 - - - # /usr/lib/tmpfiles.d/journal-nocow.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Set the NOCOW attribute for directories of journal files. This flag # is inherited by their new files and sub-directories. Matters only # for btrfs filesystems. # # WARNING: Enabling the NOCOW attribute improves journal performance # substantially, but also disables the btrfs checksum logic. In # btrfs RAID filesystems the checksums are needed for rebuilding # corrupted files. Without checksums such rebuilds are not # possible. # # In a single-disk filesystem (or a filesystem without redundancy) # enabling the NOCOW attribute for journal files is safe, because # they have their own checksums and a rebuilding wouldn't be possible # in any case. h /var/log/journal - - - - +C h /var/log/journal/%m - - - - +C h /var/log/journal/remote - - - - +C # /usr/lib/tmpfiles.d/libselinux1.conf # See tmpfiles.d(5) for details # Type Path Mode UID GID Age Argument d /run/setrans 0755 root root - - # /usr/lib/tmpfiles.d/passwd.conf # If a password operation is in progress and we lose power, stale lockfiles # can be left behind. Clear them on boot. r! /etc/gshadow.lock r! /etc/shadow.lock r! /etc/passwd.lock r! /etc/group.lock r! /etc/subuid.lock r! /etc/subgid.lock # /usr/lib/tmpfiles.d/provision.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Provision additional login messages from credentials, if they are set. Note # that these lines are NOPs if the credentials are not set or if the files # already exist. f^ /etc/motd.d/50-provision.conf - - - - login.motd f^ /etc/issue.d/50-provision.conf - - - - login.issue # Provision a /etc/hosts file from credentials. f^ /etc/hosts - - - - network.hosts # Provision SSH key for root d- /root :0700 root :root - d- /root/.ssh :0700 root :root - f^ /root/.ssh/authorized_keys :0600 root :root - ssh.authorized_keys.root # /usr/lib/tmpfiles.d/systemd-network.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. d$ /run/systemd/netif 0755 systemd-network systemd-network - d$ /run/systemd/netif/links 0755 systemd-network systemd-network - d$ /run/systemd/netif/leases 0755 systemd-network systemd-network - d$ /var/lib/systemd/network 0755 systemd-network systemd-network - # /usr/lib/tmpfiles.d/systemd-nologin.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5), systemd-user-sessions.service(8) and pam_nologin(8). f+! /run/nologin 0644 - - - "System is booting up. Unprivileged users are not permitted to log in yet. Please come back later. For technical details, see pam_nologin(8)." # /usr/lib/tmpfiles.d/systemd-pstore.conf # SPDX-License-Identifier: LGPL-2.1-or-later # # The systemd-pstore.service(1) archives the contents of /sys/fs/pstore # upon boot so that there is room for a subsequent dump. This service # is enabled with: # systemctl enable systemd-pstore # # With the service enabled, the kernel still needs to be configured # to write data into the pstore. The kernel has two parameters, # crash_kexec_post_notifiers and printk.always_kmsg_dump, that # control writes into pstore. # # The crash_kexec_post_notifiers parameter enables the kernel to write # dmesg (including stack trace) into pstore upon a panic even if kdump # is loaded, only needed if you want to use pstore with kdump. Without # this parameter, kdump could block writing to pstore for stability # reason. Note this increases the risk of kdump failure even if pstore # is not available. # # The printk.always_kmsg_dump parameter enables the kernel to write dmesg # upon a normal shutdown (shutdown, reboot, halt). # # To configure the kernel parameters, uncomment the appropriate # lines below. The value written is either 'Y' to enable the # kernel parameter, or 'N' to disable the kernel parameter. # # After making a change to this file, do: # systemd-tmpfiles --create path/to/tmpfiles.d/systemd-pstore.conf # # These changes are automatically applied on future re-boots. d /var/lib/systemd/pstore 0755 root root 14d #w- /sys/module/printk/parameters/always_kmsg_dump - - - - Y #w- /sys/module/kernel/parameters/crash_kexec_post_notifiers - - - - Y # /usr/lib/tmpfiles.d/systemd-tmp.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Exclude namespace mountpoints created with PrivateTmp=yes x /tmp/systemd-private-%b-* X /tmp/systemd-private-%b-*/tmp x /var/tmp/systemd-private-%b-* X /var/tmp/systemd-private-%b-*/tmp # Remove top-level private temporary directories on each boot R! /tmp/systemd-private-* R! /var/tmp/systemd-private-* # Handle lost systemd-coredump temp files. They could be lost on old filesystems, # for example, after hard reboot. x /var/lib/systemd/coredump/.#core*.%b* r! /var/lib/systemd/coredump/.#* # /usr/lib/tmpfiles.d/systemd.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. d /run/user 0755 root root - d /run/systemd/ask-password 0755 root root - d$ /run/systemd/seats 0755 root root - d$ /run/systemd/sessions 0755 root root - d$ /run/systemd/users 0755 root root - d /run/systemd/machines 0755 root root - d$ /run/systemd/shutdown 0755 root root - d /run/systemd/dissect-root 0000 root root - d /run/log 0755 root root - z /run/log/journal 2755 root systemd-journal - - Z /run/log/journal/%m ~2750 root systemd-journal - - a+ /run/log/journal - - - - d:group::r-x,d:group:adm:r-x,group::r-x,group:adm:r-x A+ /run/log/journal/%m - - - - d:group:adm:r-x,group:adm:r-X z /var/log/journal 2755 root systemd-journal - - z /var/log/journal/%m 2755 root systemd-journal - - z /var/log/journal/%m/system.journal 0640 root systemd-journal - - a+ /var/log/journal - - - - d:group::r-x,d:group:adm:r-x,group::r-x,group:adm:r-x a+ /var/log/journal/%m - - - - d:group:adm:r-x,group:adm:r-x a+ /var/log/journal/%m/system.journal - - - - group:adm:r-- d /var/lib/systemd 0755 root root - d /var/lib/systemd/coredump 0755 root root 2w # Files and directories in /var/lib/systemd/ephemeral-trees are locked by pid 1 to prevent tmpfiles from # removing them, and tmpfiles is told to clean up anything in /var/lib/systemd/ephemeral-trees that isn't # locked unconditionally. d /var/lib/systemd/ephemeral-trees 0755 root root 0 d /var/lib/private 0700 root root - d /var/log/private 0700 root root - d /var/cache/private 0700 root root - # /usr/lib/tmpfiles.d/tmp.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Clear tmp directories separately, to make them easier to override q /tmp 1777 root root 10d q /var/tmp 1777 root root 30d # /usr/lib/tmpfiles.d/var.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. q /var 0755 - - - L /var/run - - - - ../run d /var/log 0755 - - - d /var/cache 0755 - - - d /var/lib 0755 - - - d /var/spool 0755 - - - # /usr/lib/tmpfiles.d/x11.conf # This file is part of systemd. # # systemd is free software; you can redistribute it and/or modify it # under the terms of the GNU Lesser General Public License as published by # the Free Software Foundation; either version 2.1 of the License, or # (at your option) any later version. # See tmpfiles.d(5) for details. # Make sure these are created by default so that nobody else can # or empty them at startup D! /tmp/.X11-unix 1777 root root 10d D! /tmp/.ICE-unix 1777 root root 10d D! /tmp/.XIM-unix 1777 root root 10d D! /tmp/.font-unix 1777 root root 10d # Unlink the X11 lock files r! /tmp/.X[0-9]*-lock 2m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'systemd-tmpfiles', '--cat-config'] 2m3.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 2m6.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 2m6.1s INFO: IGNORED broken symlink: /etc/vconsole.conf (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 2m6.1s INFO: IGNORED broken symlink: /etc/default/locale (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 2m9.3s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Journal (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 2m9.3s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Manager (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 2m9.3s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Unit (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 2m9.3s ERROR: WARN: Broken symlinks: /usr/lib/clang/21.1.8/lib -> ../../llvm-21/lib/clang/21/lib (libclang-common-21-dev:amd64) /usr/lib/clang/21/lib -> ../../llvm-21/lib/clang/21/lib (libclang-common-21-dev:amd64) /usr/lib/python3/dist-packages/torch/include/torch -> ../../../../../include/torch (python3-torch) /usr/lib/python3/dist-packages/torch/include/caffe2 -> ../../../../../include/caffe2 (python3-torch) /usr/lib/python3/dist-packages/torch/include/c10 -> ../../../../../include/c10 (python3-torch) /usr/lib/python3/dist-packages/torch/include/ATen -> ../../../../../include/ATen (python3-torch) /usr/share/doc/python3-pip/html/_static/sphinx_highlight.js -> ../../../../javascript/sphinxdoc/1.0/sphinx_highlight.js (python3-pip) /usr/share/doc/python3-pip/html/_static/searchtools.js -> ../../../../javascript/sphinxdoc/1.0/searchtools.js (python3-pip) /usr/share/doc/python3-pip/html/_static/language_data.js -> ../../../../javascript/sphinxdoc/1.0/language_data.js (python3-pip) /usr/share/doc/python3-pip/html/_static/doctools.js -> ../../../../javascript/sphinxdoc/1.0/doctools.js (python3-pip) /usr/share/doc/python3-networkx/html/_static/sphinx_highlight.js -> ../../../../javascript/sphinxdoc/1.0/sphinx_highlight.js (python3-networkx) /usr/share/doc/python3-networkx/html/_static/searchtools.js -> ../../../../javascript/sphinxdoc/1.0/searchtools.js (python3-networkx) /usr/share/doc/python3-networkx/html/_static/language_data.js -> ../../../../javascript/sphinxdoc/1.0/language_data.js (python3-networkx) /usr/share/doc/python3-networkx/html/_static/doctools.js -> ../../../../javascript/sphinxdoc/1.0/doctools.js (python3-networkx) 2m11.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', '-ac', '--ignore-obsolete'] 2m17.0s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', '-ac', '--ignore-obsolete'] 2m17.0s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m17.0s DUMP: 0.15.9~deb12u1 2m17.0s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m17.0s INFO: Running adequate version 0.15.9~deb12u1 now. 2m17.0s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'cnvkit'] 2m17.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'cnvkit'] 2m17.2s INFO: Running scripts pre_remove 2m17.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m17.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m17.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m17.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m17.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m25.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m25.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m25.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m25.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m25.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_exceptions'] 2m25.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/pre_remove_exceptions'] 2m25.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m26.0s DUMP: install ok installed apt apt 3.3.1 install ok installed base-files base-files 14.0 install ok installed base-passwd base-passwd 3.6.8 install ok installed bash bash 5.3-3 install ok installed bsdutils bsdutils 1:2.42-6 install ok installed ca-certificates ca-certificates 20260223 install ok installed cnvkit cnvkit 0.9.13-1 install ok installed coreutils coreutils 9.10-1 install ok installed dash dash 0.5.12-12 install ok installed debconf debconf 1.5.92 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 1.23.7 install ok installed findutils findutils 4.10.0-4 install ok installed fontconfig fontconfig 2.17.1-5 install ok installed fontconfig-config fontconfig-config 2.17.1-5 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-9 install ok installed fonts-dejavu-extra fonts-dejavu-extra 2.37-9 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-9 install ok installed fonts-lyx fonts-lyx 2.5.1-1 install ok installed fonts-urw-base35 fonts-urw-base35 20200910-9 install ok installed gcc-16-base:amd64 gcc-16-base 16.1.0-1 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 ibverbs-providers:amd64 ibverbs-providers 63.0-1 install ok installed init-system-helpers init-system-helpers 1.69 install ok installed libabsl20260107:amd64 libabsl20260107 20260107.0-5 install ok installed libacl1:amd64 libacl1 2.3.2-3 install ok installed libamd-comgr3:amd64 libamd-comgr3 7.0.2+dfsg-3 install ok installed libamdhip64-6:amd64 libamdhip64-6 6.4.3-5 install ok installed libaom3:amd64 libaom3 3.13.1-2+b1 install ok installed libapt-pkg7.0:amd64 libapt-pkg7.0 3.3.1 install ok installed libatomic1:amd64 libatomic1 16.1.0-1 install ok installed libattr1:amd64 libattr1 1:2.5.2-4 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 1.4.1-1+b1 install ok installed libbenchmark1.9.1:amd64 libbenchmark1.9.1 1.9.1-1+b2 install ok installed libblas3:amd64 libblas3 3.12.1-7+b2 install ok installed libblkid1:amd64 libblkid1 2.42-6 install ok installed libbrotli1:amd64 libbrotli1 1.2.0-3 install ok installed libbsd0:amd64 libbsd0 0.12.2-2+b2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6+b2 install ok installed libc-bin libc-bin 2.42-16 install ok installed libc-gconv-modules-extra:amd64 libc-gconv-modules-extra 2.42-16 install ok installed libc6:amd64 libc6 2.42-16 install ok installed libcairo2:amd64 libcairo2 1.18.4-3+b1 install ok installed libcap-ng0:amd64 libcap-ng0 0.9.3-1 install ok installed libclang-common-21-dev:amd64 libclang-common-21-dev 1:21.1.8-7+b1 install ok installed libcom-err2:amd64 libcom-err2 1.47.4-1 install ok installed libcpp-httplib0.41:amd64 libcpp-httplib0.41 0.41.0+ds-3 install ok installed libcpuinfo0:amd64 libcpuinfo0 0.0~git20250905.877328f-1+b1 install ok installed libcrypt1:amd64 libcrypt1 1:4.5.1-1+b1 install ok installed libcurl3t64-gnutls:amd64 libcurl3t64-gnutls 8.20.0-2 install ok installed libcurl4t64:amd64 libcurl4t64 8.20.0-2 install ok installed libdatrie1:amd64 libdatrie1 0.2.14-1+b1 install ok installed libdav1d7:amd64 libdav1d7 1.5.3-1+b2 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-11+b1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.283 install ok installed libdeflate0:amd64 libdeflate0 1.23-2+b2 install ok installed libdnnl3.6:amd64 libdnnl3.6 3.9.1+ds-2 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.131-1+b1 install ok installed libdrm-common libdrm-common 2.4.131-1 install ok installed libdrm2:amd64 libdrm2 2.4.131-1+b1 install ok installed libedit2:amd64 libedit2 3.1-20251016-1+b1 install ok installed libelf1t64:amd64 libelf1t64 0.195-1 install ok installed libevent-core-2.1-7t64:amd64 libevent-core-2.1-7t64 2.1.12-stable-10+b2 install ok installed libevent-pthreads-2.1-7t64:amd64 libevent-pthreads-2.1-7t64 2.1.12-stable-10+b2 install ok installed libexpat1:amd64 libexpat1 2.8.0-2 install ok installed libfabric1:amd64 libfabric1 2.1.0-1.1+b2 install ok installed libffi8:amd64 libffi8 3.5.2-4 install ok installed libfmt10:amd64 libfmt10 10.1.1+ds1-4+b2 install ok installed libfontconfig1:amd64 libfontconfig1 2.17.1-5 install ok installed libfontenc1:amd64 libfontenc1 1:1.1.8-1+b3 install ok installed libfreetype6:amd64 libfreetype6 2.14.3+dfsg-1 install ok installed libfribidi0:amd64 libfribidi0 1.0.16-5+b1 install ok installed libfuse3-4:amd64 libfuse3-4 3.18.2-2 install ok installed libgav1-2:amd64 libgav1-2 0.20.0-2+b1 install ok installed libgcc-s1:amd64 libgcc-s1 16.1.0-1 install ok installed libgcrypt20:amd64 libgcrypt20 1.12.2-1 install ok installed libgfortran5:amd64 libgfortran5 16.1.0-1 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.88.1-2 install ok installed libgloo0 libgloo0 0.0~git20250912.d97133a-2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-5+b2 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.13-1 install ok installed libgomp1:amd64 libgomp1 16.1.0-1 install ok installed libgpg-error0:amd64 libgpg-error0 1.61-2 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-13 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.22.1-2.1 install ok installed libharfbuzz-subset0:amd64 libharfbuzz-subset0 12.3.2-2+b2 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 12.3.2-2+b2 install ok installed libhiredis1.1.0:amd64 libhiredis1.1.0 1.2.0-6+b4 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10.2-1+b1 install ok installed libhsa-runtime64-1:amd64 libhsa-runtime64-1 6.4.3+dfsg-5 install ok installed libhts3t64:amd64 libhts3t64 1.22.1+ds2-1+b2 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.6.6-1 install ok installed libhwloc-plugins:amd64 libhwloc-plugins 2.13.0-2 install ok installed libhwloc15:amd64 libhwloc15 2.13.0-2 install ok installed libibmad5:amd64 libibmad5 63.0-1 install ok installed libibumad3:amd64 libibumad3 63.0-1 install ok installed libibverbs1:amd64 libibverbs1 63.0-1 install ok installed libice6:amd64 libice6 2:1.1.1-1+b2 install ok installed libicu78:amd64 libicu78 78.3-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.8-5 install ok installed libimagequant0:amd64 libimagequant0 4.4.1-1+b2 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b3 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:3.1.3-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.22.1-2.1 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-6+b2 install ok installed libkrb5-3:amd64 libkrb5-3 1.22.1-2.1 install ok installed libkrb5support0:amd64 libkrb5support0 1.22.1-2.1 install ok installed liblapack3:amd64 liblapack3 3.12.1-7+b2 install ok installed liblcms2-2:amd64 liblcms2-2 2.19.1-1 install ok installed libldap2:amd64 libldap2 2.6.10+dfsg-1+b2 install ok installed liblerc4:amd64 liblerc4 4.1.0+ds-1 install ok installed libllvm21:amd64 libllvm21 1:21.1.8-7+b1 install ok installed liblz4-1:amd64 liblz4-1 1.10.0-10 install ok installed liblzma5:amd64 liblzma5 5.8.3-1 install ok installed libmd0:amd64 libmd0 1.2.0-1 install ok installed libmount1:amd64 libmount1 2.42-6 install ok installed libmunge2:amd64 libmunge2 0.5.18-1 install ok installed libncursesw6:amd64 libncursesw6 6.6+20251231-1+b1 install ok installed libnettle8t64:amd64 libnettle8t64 3.10.2-1+b1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.69.0-1 install ok installed libnghttp3-9:amd64 libnghttp3-9 1.15.0-1 install ok installed libngtcp2-16:amd64 libngtcp2-16 1.22.1-1 install ok installed libngtcp2-crypto-gnutls8:amd64 libngtcp2-crypto-gnutls8 1.22.1-1 install ok installed libngtcp2-crypto-ossl0:amd64 libngtcp2-crypto-ossl0 1.22.1-1 install ok installed libnl-3-200:amd64 libnl-3-200 3.12.0-2+b1 install ok installed libnl-route-3-200:amd64 libnl-route-3-200 3.12.0-2+b1 install ok installed libnuma1:amd64 libnuma1 2.0.19-1+b2 install ok installed libonnx1l:amd64 libonnx1l 1.20.0-4 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.4-1.1 install ok installed libopenmpi40:amd64 libopenmpi40 5.0.10-1 install ok installed libp11-kit0:amd64 libp11-kit0 0.26.2-2 install ok installed libpam-modules:amd64 libpam-modules 1.7.0-5+b2 install ok installed libpam-modules-bin libpam-modules-bin 1.7.0-5+b2 install ok installed libpam-runtime libpam-runtime 1.7.0-5 install ok installed libpam0g:amd64 libpam0g 1.7.0-5+b2 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.57.1-2 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.57.1-2 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.57.1-2 install ok installed libpaper-utils libpaper-utils 2.2.5-0.4 install ok installed libpaper2:amd64 libpaper2 2.2.5-0.4 install ok installed libpciaccess0:amd64 libpciaccess0 0.17-3+b4 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.46-1+b2 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.46.4-1+b2 install ok installed libpmix2t64:amd64 libpmix2t64 6.0.0+really5.0.9-3+b1 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.58-1 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-9+b2 install ok installed libprotobuf-lite32t64:amd64 libprotobuf-lite32t64 3.21.12-15+b1 install ok installed libprotobuf32t64:amd64 libprotobuf32t64 3.21.12-15+b1 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.5-1 install ok installed libpsm2-2 libpsm2-2 11.2.185-2.1 install ok installed libpthreadpool0:amd64 libpthreadpool0 0.0~git20251020.0e6ca13-1.1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.13.9-3+b1 install ok installed libpython3.13-minimal:amd64 libpython3.13-minimal 3.13.12-1 install ok installed libpython3.13-stdlib:amd64 libpython3.13-stdlib 3.13.12-1 install ok installed libqhull-r8.0:amd64 libqhull-r8.0 2020.2-9 install ok installed libraqm0:amd64 libraqm0 0.10.5-1 install ok installed librav1e0.8:amd64 librav1e0.8 0.8.1-10 install ok installed librdmacm1t64:amd64 librdmacm1t64 63.0-1 install ok installed libreadline8t64:amd64 libreadline8t64 8.3-4 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-11 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-11 install ok installed libseccomp2:amd64 libseccomp2 2.6.0-2+b1 install ok installed libselinux1:amd64 libselinux1 3.10-1 install ok installed libsemanage-common libsemanage-common 3.10-1 install ok installed libsemanage2:amd64 libsemanage2 3.10-1 install ok installed libsepol2:amd64 libsepol2 3.10-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.5.0-0.1+b2 install ok installed libsleef3:amd64 libsleef3 3.9.0-1 install ok installed libsm6:amd64 libsm6 2:1.2.6-1+b2 install ok installed libsmartcols1:amd64 libsmartcols1 2.42-6 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-9+b1 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.1-3 install ok installed libssl3t64:amd64 libssl3t64 3.6.2-1 install ok installed libstdc++6:amd64 libstdc++6 16.1.0-1 install ok installed libsvtav1enc4:amd64 libsvtav1enc4 4.1.0+dfsg-1 install ok installed libsystemd-shared:amd64 libsystemd-shared 260.1-1 install ok installed libsystemd0:amd64 libsystemd0 260.1-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.21.0-2+b1 install ok installed libtbb12:amd64 libtbb12 2022.3.0-2 install ok installed libtbbbind-2-5:amd64 libtbbbind-2-5 2022.3.0-2 install ok installed libtbbmalloc2:amd64 libtbbmalloc2 2022.3.0-2 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.18+dfsg-1 install ok installed libtensorpipe0:amd64 libtensorpipe0 0.0~git20250815.af0118d-1+b1 install ok installed libtext-charwidth-perl:amd64 libtext-charwidth-perl 0.04-12 install ok installed libtext-wrapi18n-perl libtext-wrapi18n-perl 0.06-11 install ok installed libthai-data libthai-data 0.1.30-1 install ok installed libthai0:amd64 libthai0 0.1.30-1+b1 install ok installed libtiff6:amd64 libtiff6 4.7.1-2 install ok installed libtinfo6:amd64 libtinfo6 6.6+20251231-1+b1 install ok installed libtirpc-common libtirpc-common 1.3.7+ds-1 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.7+ds-1 install ok installed libtk8.6:amd64 libtk8.6 8.6.18-1 install ok installed libtorch-test libtorch-test 2.12.0+dfsg2-1 install ok installed libtorch2.12:amd64 libtorch2.12 2.12.0+dfsg2-1 install ok installed libucc1:amd64 libucc1 1.7.0~rc1-1 install ok installed libucx0:amd64 libucx0 1.20.1~rc2-1 install ok installed libudev1:amd64 libudev1 260.1-1 install ok installed libunistring5:amd64 libunistring5 1.4.2-1 install ok installed libuuid1:amd64 libuuid1 2.42-6 install ok installed libuv1t64:amd64 libuv1t64 1.51.0-2+b2 install ok installed libvulkan1:amd64 libvulkan1 1.4.341.0-1 install ok installed libwebp7:amd64 libwebp7 1.5.0-0.1+b2 install ok installed libwebpdemux2:amd64 libwebpdemux2 1.5.0-0.1+b2 install ok installed libwebpmux3:amd64 libwebpmux3 1.5.0-0.1+b2 install ok installed libx11-6:amd64 libx11-6 2:1.8.13-1 install ok installed libx11-data libx11-data 2:1.8.13-1 install ok installed libxau6:amd64 libxau6 1:1.0.11-1+b2 install ok installed libxcb-render0:amd64 libxcb-render0 1.17.0-2+b2 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.17.0-2+b2 install ok installed libxcb1:amd64 libxcb1 1.17.0-2+b2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.5-2+b1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b4 install ok installed libxft2:amd64 libxft2 2.3.6-1+b5 install ok installed libxml2-16:amd64 libxml2-16 2.15.2+dfsg-0.1 install ok installed libxnnpack0.20241108:amd64 libxnnpack0.20241108 0.0~git20241108.4ea82e5-2+b1 install ok installed libxnvctrl0:amd64 libxnvctrl0 535.171.04-1+b3 install ok installed libxrender1:amd64 libxrender1 1:0.9.12-1+b2 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.45-0.1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1+b4 install ok installed libxt6t64:amd64 libxt6t64 1:1.2.1-1.3+b2 install ok installed libxxhash0:amd64 libxxhash0 0.8.3-2+b2 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.5-2+b1 install ok installed libyuv0:amd64 libyuv0 0.0.1922.20260106-1+b1 install ok installed libz3-4:amd64 libz3-4 4.13.3-1.1 install ok installed libze1:amd64 libze1 1.28.2-2 install ok installed libzopfli1 libzopfli1 1.0.3-3 install ok installed libzstd1:amd64 libzstd1 1.5.7+dfsg-3+b2 install ok installed login login 1:4.16.0-2+really2.42-6 install ok installed login.defs login.defs 1:4.19.3-2 install ok installed mawk mawk 1.3.4.20260302-1 install ok installed media-types media-types 14.0.0 install ok installed mount mount 2.42-6 install ok installed ncurses-base ncurses-base 6.6+20251231-1 install ok installed ncurses-bin ncurses-bin 6.6+20251231-1+b1 install ok installed netbase netbase 6.5 install ok installed ocl-icd-libopencl1:amd64 ocl-icd-libopencl1 2.3.4-1+b1 install ok installed openssl openssl 3.6.2-1 install ok installed openssl-provider-legacy openssl-provider-legacy 3.6.2-1 install ok installed passwd passwd 1:4.19.3-2 install ok installed perl-base perl-base 5.40.1-7+b1 install ok installed procps procps 2:4.0.4-9+b2 install ok installed python-matplotlib-data python-matplotlib-data 3.10.7+dfsg1-4 install ok installed python3 python3 3.13.9-3+b1 install ok installed python3-apricot-select python3-apricot-select 0.6.1-1 install ok installed python3-attr python3-attr 26.1.0-1 install ok installed python3-autocommand python3-autocommand 2.2.2-4 install ok installed python3-biopython python3-biopython 1.87+dfsg-1 install ok installed python3-brotli python3-brotli 1.2.0-3 install ok installed python3-build python3-build 1.4.0-1 install ok installed python3-cairo python3-cairo 1.27.0-2+b1 install ok installed python3-certifi python3-certifi 2026.4.22+ds-1 install ok installed python3-chardet python3-chardet 5.2.0+dfsg-2 install ok installed python3-charset-normalizer python3-charset-normalizer 3.4.7-1 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-decorator python3-decorator 5.2.1-2 install ok installed python3-expecttest python3-expecttest 0.3.0-1 install ok installed python3-filelock python3-filelock 3.29.0-1 install ok installed python3-fonttools python3-fonttools 4.62.1-7 install ok installed python3-freetype python3-freetype 2.5.1-2 install ok installed python3-fsspec python3-fsspec 2025.12.0-1 install ok installed python3-hypothesis python3-hypothesis 6.152.4-1 install ok installed python3-idna python3-idna 3.11-1 install ok installed python3-inflect python3-inflect 7.5.0-1 install ok installed python3-iniconfig python3-iniconfig 2.1.0-2 install ok installed python3-jaraco.context python3-jaraco.context 6.0.1-2 install ok installed python3-jaraco.functools python3-jaraco.functools 4.1.0-1 install ok installed python3-jaraco.text python3-jaraco.text 4.0.0-1 install ok installed python3-jinja2 python3-jinja2 3.1.6-2 install ok installed python3-joblib python3-joblib 1.5.2-1 install ok installed python3-kiwisolver python3-kiwisolver 1.5.0-1 install ok installed python3-llvmlite python3-llvmlite 0.47.0-0.1 install ok installed python3-lxml:amd64 python3-lxml 6.1.0-1 install ok installed python3-lz4 python3-lz4 4.4.5+dfsg-1 install ok installed python3-markupsafe python3-markupsafe 3.0.3-1+b1 install ok installed python3-matplotlib python3-matplotlib 3.10.7+dfsg1-4 install ok installed python3-minimal python3-minimal 3.13.9-3+b1 install ok installed python3-more-itertools python3-more-itertools 10.8.0-1 install ok installed python3-mpmath python3-mpmath 1.4.1-2 install ok installed python3-networkx python3-networkx 3.4.2-5 install ok installed python3-numba python3-numba 0.65.1+dfsg-1 install ok installed python3-numpy python3-numpy 1:2.4.4+ds-2 install ok installed python3-numpy-dev:amd64 python3-numpy-dev 1:2.4.4+ds-2 install ok installed python3-packaging python3-packaging 26.0-1 install ok installed python3-pandas python3-pandas 2.3.3+dfsg-3 install ok installed python3-pandas-lib:amd64 python3-pandas-lib 2.3.3+dfsg-3+b1 install ok installed python3-pil:amd64 python3-pil 12.2.0-1 install ok installed python3-pil.imagetk:amd64 python3-pil.imagetk 12.2.0-1 install ok installed python3-pip python3-pip 26.0.1+dfsg-1 install ok installed python3-pkg-resources python3-pkg-resources 78.1.1-0.1 install ok installed python3-pluggy python3-pluggy 1.6.0-2 install ok installed python3-pomegranate python3-pomegranate 1.1.0-1 install ok installed python3-psutil python3-psutil 7.1.0-1 install ok installed python3-pyfaidx python3-pyfaidx 0.8.1.3-2 install ok installed python3-pygments python3-pygments 2.19.2+dfsg-1 install ok installed python3-pyparsing python3-pyparsing 3.3.2-2 install ok installed python3-pyproject-hooks python3-pyproject-hooks 1.2.0-1 install ok installed python3-pysam python3-pysam 0.23.3+ds-2+b1 install ok installed python3-pytest python3-pytest 9.0.3-1 install ok installed python3-pytz python3-pytz 2025.2-6 install ok installed python3-reportlab python3-reportlab 4.5.1-1 install ok installed python3-requests python3-requests 2.32.5+dfsg-1 install ok installed python3-rlpycairo python3-rlpycairo 0.3.0-4 install ok installed python3-scipy python3-scipy 1.16.3-4 install ok installed python3-setuptools python3-setuptools 78.1.1-0.1 install ok installed python3-six python3-six 1.17.0-2 install ok installed python3-sklearn python3-sklearn 1.8.0+dfsg-4 install ok installed python3-sklearn-lib:amd64 python3-sklearn-lib 1.8.0+dfsg-4 install ok installed python3-sortedcontainers python3-sortedcontainers 2.4.0-2 install ok installed python3-sympy python3-sympy 1.14.0-3 install ok installed python3-threadpoolctl python3-threadpoolctl 3.1.0-1 install ok installed python3-tk python3-tk 3.13.9-3+b1 install ok installed python3-torch python3-torch 2.12.0+dfsg2-1 install ok installed python3-tqdm python3-tqdm 4.67.3-1 install ok installed python3-typeguard python3-typeguard 4.4.4-2 install ok installed python3-typing-extensions python3-typing-extensions 4.15.0-2 install ok installed python3-ufolib2 python3-ufolib2 0.18.1+dfsg1-1 install ok installed python3-uharfbuzz python3-uharfbuzz 0.53.3-1+b1 install ok installed python3-unicodedata2 python3-unicodedata2 17.0.1+ds-1 install ok installed python3-urllib3 python3-urllib3 2.6.3-2 install ok installed python3-wheel python3-wheel 0.47.0-1 install ok installed python3-yaml python3-yaml 6.0.3-1 install ok installed python3-zipp python3-zipp 3.23.0-1 install ok installed python3-zopfli python3-zopfli 0.4.1-1 install ok installed python3.13 python3.13 3.13.12-1 install ok installed python3.13-minimal python3.13-minimal 3.13.12-1 install ok installed python3.13-tk python3.13-tk 3.13.12-1 install ok installed python3.14-tk python3.14-tk 3.14.5-1 install ok installed r-base-core r-base-core 4.6.0-4 install ok installed r-bioc-biocgenerics r-bioc-biocgenerics 0.52.0-3 install ok installed r-bioc-dnacopy r-bioc-dnacopy 1.80.0-3 install ok installed readline-common readline-common 8.3-4 install ok installed sed sed 4.9-3 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+b1 install ok installed systemd systemd 260.1-1 install ok installed sysvinit-utils sysvinit-utils 3.18-1 install ok installed tar tar 1.35+dfsg-4 install ok installed tzdata tzdata 2026b-1 install ok installed ucf ucf 3.0053 install ok installed unicode-data unicode-data 17.0.0-2 install ok installed unzip unzip 6.0-29 install ok installed util-linux util-linux 2.42-6 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 xdg-utils xdg-utils 1.2.1-2 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 0.20 install ok installed zip zip 3.0-15 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.2-3 2m26.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m26.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', 'remove', '--allow-remove-essential', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'ibverbs-providers:amd64', 'libabsl20260107:amd64', 'libamd-comgr3:amd64', 'libamdhip64-6:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libbenchmark1.9.1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libclang-common-21-dev:amd64', 'libcom-err2:amd64', 'libcpp-httplib0.41:amd64', 'libcpuinfo0:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libdnnl3.6:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libexpat1:amd64', 'libfabric1:amd64', 'libffi8:amd64', 'libfmt10:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libfuse3-4:amd64', 'libgav1-2:amd64', 'libgcrypt20:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgloo0', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz-subset0:amd64', 'libharfbuzz0b:amd64', 'libhiredis1.1.0:amd64', 'libhsa-runtime64-1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libice6:amd64', 'libicu78: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', 'libllvm21:amd64', 'libmunge2:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libonnx1l:amd64', 'libopenjp2-7:amd64', 'libopenmpi40:amd64', 'libp11-kit0:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper2:amd64', 'libpciaccess0:amd64', 'libpixman-1-0:amd64', 'libpmix2t64:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libprotobuf-lite32t64:amd64', 'libprotobuf32t64:amd64', 'libpsl5t64:amd64', 'libpsm2-2', 'libpthreadpool0:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'librdmacm1t64:amd64', 'libreadline8t64:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsleef3:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsvtav1enc4:amd64', 'libsystemd-shared:amd64', 'libtasn1-6:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libtensorpipe0:amd64', 'libtext-charwidth-perl:amd64', 'libtext-wrapi18n-perl', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtorch-test', 'libtorch2.12:amd64', 'libucc1:amd64', 'libucx0:amd64', 'libunistring5:amd64', 'libuv1t64:amd64', 'libvulkan1: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', 'libxnnpack0.20241108:amd64', 'libxnvctrl0:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libyaml-0-2:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'libze1:amd64', 'libzopfli1', 'media-types', 'netbase', 'ocl-icd-libopencl1:amd64', 'openssl', 'procps', 'python-matplotlib-data', 'python3', 'python3-apricot-select', 'python3-attr', 'python3-autocommand', 'python3-biopython', 'python3-brotli', 'python3-build', 'python3-cairo', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-expecttest', 'python3-filelock', 'python3-fonttools', 'python3-freetype', 'python3-fsspec', 'python3-hypothesis', 'python3-idna', 'python3-inflect', 'python3-iniconfig', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-jaraco.text', 'python3-jinja2', 'python3-joblib', 'python3-kiwisolver', 'python3-llvmlite', 'python3-lxml:amd64', 'python3-lz4', 'python3-markupsafe', 'python3-matplotlib', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-networkx', 'python3-numba', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pip', 'python3-pkg-resources', 'python3-pluggy', 'python3-pomegranate', 'python3-psutil', 'python3-pyfaidx', 'python3-pygments', 'python3-pyparsing', 'python3-pyproject-hooks', 'python3-pysam', 'python3-pytest', 'python3-pytz', 'python3-reportlab', 'python3-requests', 'python3-rlpycairo', 'python3-scipy', 'python3-setuptools', 'python3-six', 'python3-sklearn', 'python3-sklearn-lib:amd64', 'python3-sortedcontainers', 'python3-sympy', 'python3-threadpoolctl', 'python3-tk', 'python3-torch', 'python3-tqdm', 'python3-typeguard', 'python3-typing-extensions', 'python3-ufolib2', 'python3-uharfbuzz', 'python3-unicodedata2', 'python3-urllib3', 'python3-wheel', 'python3-yaml', 'python3-zipp', 'python3-zopfli', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'python3.14-tk', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-dnacopy', 'readline-common', 'sensible-utils', 'sgml-base', 'systemd', 'ucf', 'unicode-data', 'unzip', 'w3c-sgml-lib', 'x11-common', 'xdg-utils', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'zip', 'cnvkit'] 3m5.5s DUMP: Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following packages will be REMOVED: ca-certificates cnvkit fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono fonts-lyx fonts-urw-base35 ibverbs-providers libabsl20260107 libamd-comgr3 libamdhip64-6 libaom3 libatomic1 libavif16 libbenchmark1.9.1 libblas3 libbrotli1 libcairo2 libclang-common-21-dev libcom-err2 libcpp-httplib0.41 libcpuinfo0 libcurl3t64-gnutls libcurl4t64 libdatrie1 libdav1d7 libdeflate0 libdnnl3.6 libdrm-amdgpu1 libdrm-common libdrm2 libedit2 libelf1t64 libevent-core-2.1-7t64 libevent-pthreads-2.1-7t64 libexpat1 libfabric1 libffi8 libfmt10 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libfuse3-4 libgav1-2 libgcrypt20 libgfortran5 libglib2.0-0t64 libgloo0 libgnutls30t64 libgomp1 libgpg-error0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz-subset0 libharfbuzz0b libhiredis1.1.0 libhsa-runtime64-1 libhts3t64 libhtscodecs2 libhwloc-plugins libhwloc15 libibmad5 libibumad3 libibverbs1 libice6 libicu78 libidn2-0 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap2 liblerc4 libllvm21 libmunge2 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libngtcp2-crypto-ossl0 libnl-3-200 libnl-route-3-200 libnuma1 libonnx1l libopenjp2-7 libopenmpi40 libp11-kit0 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpciaccess0 libpixman-1-0 libpmix2t64 libpng16-16t64 libproc2-0 libprotobuf-lite32t64 libprotobuf32t64 libpsl5t64 libpsm2-2 libpthreadpool0 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 librav1e0.8 librdmacm1t64 libreadline8t64 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsleef3 libsm6 libsqlite3-0 libssh2-1t64 libsvtav1enc4 libsystemd-shared libtasn1-6 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libtensorpipe0 libtext-charwidth-perl libtext-wrapi18n-perl libthai-data libthai0 libtiff6 libtirpc-common libtirpc3t64 libtk8.6 libtorch-test libtorch2.12 libucc1 libucx0 libunistring5 libuv1t64 libvulkan1 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2-16 libxnnpack0.20241108 libxnvctrl0 libxrender1 libxslt1.1 libxss1 libxt6t64 libyaml-0-2 libyuv0 libz3-4 libze1 libzopfli1 media-types netbase ocl-icd-libopencl1 openssl procps python-matplotlib-data python3 python3-apricot-select python3-attr python3-autocommand python3-biopython python3-brotli python3-build python3-cairo python3-certifi python3-chardet python3-charset-normalizer python3-contourpy python3-cycler python3-dateutil python3-decorator python3-expecttest python3-filelock python3-fonttools python3-freetype python3-fsspec python3-hypothesis python3-idna python3-inflect python3-iniconfig python3-jaraco.context python3-jaraco.functools python3-jaraco.text python3-jinja2 python3-joblib python3-kiwisolver python3-llvmlite python3-lxml python3-lz4 python3-markupsafe python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-networkx python3-numba python3-numpy python3-numpy-dev python3-packaging python3-pandas python3-pandas-lib python3-pil python3-pil.imagetk python3-pip python3-pkg-resources python3-pluggy python3-pomegranate python3-psutil python3-pyfaidx python3-pygments python3-pyparsing python3-pyproject-hooks python3-pysam python3-pytest python3-pytz python3-reportlab python3-requests python3-rlpycairo python3-scipy python3-setuptools python3-six python3-sklearn python3-sklearn-lib python3-sortedcontainers python3-sympy python3-threadpoolctl python3-tk python3-torch python3-tqdm python3-typeguard python3-typing-extensions python3-ufolib2 python3-uharfbuzz python3-unicodedata2 python3-urllib3 python3-wheel python3-yaml python3-zipp python3-zopfli python3.13 python3.13-minimal python3.13-tk python3.14-tk r-base-core r-bioc-biocgenerics r-bioc-dnacopy readline-common sensible-utils sgml-base systemd ucf unicode-data unzip w3c-sgml-lib x11-common xdg-utils xfonts-encodings xfonts-utils xml-core zip 0 upgraded, 0 newly installed, 283 to remove and 0 not upgraded. After this operation, 1957 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 ... 36385 files and directories currently installed.) Removing cnvkit (0.9.13-1) ... Removing python3-pomegranate (1.1.0-1) ... Removing python3-torch (2.12.0+dfsg2-1) ... Removing python3-requests (2.32.5+dfsg-1) ... Removing r-bioc-dnacopy (1.80.0-3) ... Removing python3-biopython (1.87+dfsg-1) ... Removing python3-reportlab (4.5.1-1) ... Removing python3-matplotlib (3.10.7+dfsg1-4) ... Removing python3-pil.imagetk:amd64 (12.2.0-1) ... Removing python3-pil:amd64 (12.2.0-1) ... Removing python3-tk (3.13.9-3+b1) ... Removing python3.14-tk (3.14.5-1) ... Removing python3.13-tk (3.13.12-1) ... Removing python3-rlpycairo (0.3.0-4) ... Removing python3-cairo (1.27.0-2+b1) ... Removing python-matplotlib-data (3.10.7+dfsg1-4) ... Removing fonts-dejavu-extra (2.37-9) ... Removing fonts-dejavu-core (2.37-9) ... Removing fonts-dejavu-mono (2.37-9) ... Removing fonts-lyx (2.5.1-1) ... Removing libtorch-test (2.12.0+dfsg2-1) ... Removing libtorch2.12:amd64 (2.12.0+dfsg2-1) ... Removing libgloo0 (0.0~git20250912.d97133a-2) ... Removing libopenmpi40:amd64 (5.0.10-1) ... Removing libfabric1:amd64 (2.1.0-1.1+b2) ... Removing ibverbs-providers:amd64 (63.0-1) ... Removing libavif16:amd64 (1.4.1-1+b1) ... Removing libgav1-2:amd64 (0.20.0-2+b1) ... Removing libabsl20260107:amd64 (20260107.0-5) ... Removing libucc1:amd64 (1.7.0~rc1-1) ... Removing libucx0:amd64 (1.20.1~rc2-1) ... Removing libamdhip64-6:amd64 (6.4.3-5) ... Removing libamd-comgr3:amd64 (7.0.2+dfsg-3) ... Removing libaom3:amd64 (3.13.1-2+b1) ... Removing libbenchmark1.9.1:amd64 (1.9.1-1+b2) ... Removing python3-sklearn (1.8.0+dfsg-4) ... Removing python3-apricot-select (0.6.1-1) ... Removing python3-sklearn-lib:amd64 (1.8.0+dfsg-4) ... Removing python3-pandas (2.3.3+dfsg-3) ... Removing python3-pandas-lib:amd64 (2.3.3+dfsg-3+b1) ... Removing libraqm0:amd64 (0.10.5-1) ... Removing libclang-common-21-dev:amd64 (1:21.1.8-7+b1) ... Removing python3-pysam (0.23.3+ds-2+b1) ... Removing libhts3t64:amd64 (1.22.1+ds2-1+b2) ... Removing libcurl3t64-gnutls:amd64 (8.20.0-2) ... Removing libcpp-httplib0.41:amd64 (0.41.0+ds-3) ... Removing libxnnpack0.20241108:amd64 (0.0~git20241108.4ea82e5-2+b1) ... Removing libcpuinfo0:amd64 (0.0~git20250905.877328f-1+b1) ... Removing libdav1d7:amd64 (1.5.3-1+b2) ... Removing libdnnl3.6:amd64 (3.9.1+ds-2) ... Removing libhsa-runtime64-1:amd64 (6.4.3+dfsg-5) ... Removing libdrm-amdgpu1:amd64 (2.4.131-1+b1) ... Removing libdrm2:amd64 (2.4.131-1+b1) ... Removing libdrm-common (2.4.131-1) ... Removing libllvm21:amd64 (1:21.1.8-7+b1) ... Removing libedit2:amd64 (3.1-20251016-1+b1) ... Removing libelf1t64:amd64 (0.195-1) ... Removing libpmix2t64:amd64 (6.0.0+really5.0.9-3+b1) ... Removing libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10+b2) ... Removing libevent-core-2.1-7t64:amd64 (2.1.12-stable-10+b2) ... Removing python3-pip (26.0.1+dfsg-1) ... Removing python3-build (1.4.0-1) ... Removing python3-wheel (0.47.0-1) ... Removing python3-setuptools (78.1.1-0.1) ... Removing python3-yaml (6.0.3-1) ... Removing python3-tqdm (4.67.3-1) ... Removing python3-jaraco.text (4.0.0-1) ... Removing libngtcp2-crypto-gnutls8:amd64 (1.22.1-1) ... Removing libgnutls30t64:amd64 (3.8.13-1) ... Removing libp11-kit0:amd64 (0.26.2-2) ... Removing libfmt10:amd64 (10.1.1+ds1-4+b2) ... Removing libfuse3-4:amd64 (3.18.2-2) ... Removing python3-numba (0.65.1+dfsg-1) ... Removing libhiredis1.1.0:amd64 (1.2.0-6+b4) ... Removing libhtscodecs2:amd64 (1.6.6-1) ... Removing libhwloc-plugins:amd64 (2.13.0-2) ... Removing libtbb12:amd64 (2022.3.0-2) ... Removing libtbbbind-2-5:amd64 (2022.3.0-2) ... Removing libhwloc15:amd64 (2.13.0-2) ... Removing libibmad5:amd64 (63.0-1) ... Removing libibumad3:amd64 (63.0-1) ... Removing librdmacm1t64:amd64 (63.0-1) ... Removing libibverbs1:amd64 (63.0-1) ... Removing libimagequant0:amd64 (4.4.1-1+b2) ... Removing libyuv0:amd64 (0.0.1922.20260106-1+b1) ... Removing liblcms2-2:amd64 (2.19.1-1) ... Removing libmunge2:amd64 (0.5.18-1) ... Removing python3-joblib (1.5.2-1) ... Removing libnl-route-3-200:amd64 (3.12.0-2+b1) ... Removing libnl-3-200:amd64 (3.12.0-2+b1) ... Removing libpsm2-2 (11.2.185-2.1) ... Removing libnuma1:amd64 (2.0.19-1+b2) ... Removing libonnx1l:amd64 (1.20.0-4) ... Removing libopenjp2-7:amd64 (2.5.4-1.1) ... Removing libpciaccess0:amd64 (0.17-3+b4) ... Removing libprotobuf-lite32t64:amd64 (3.21.12-15+b1) ... Removing libprotobuf32t64:amd64 (3.21.12-15+b1) ... Removing libpthreadpool0:amd64 (0.0~git20251020.0e6ca13-1.1) ... Removing librav1e0.8:amd64 (0.8.1-10) ... Removing libwebpmux3:amd64 (1.5.0-0.1+b2) ... Removing libwebpdemux2:amd64 (1.5.0-0.1+b2) ... Removing libsleef3:amd64 (3.9.0-1) ... Removing libsvtav1enc4:amd64 (4.1.0+dfsg-1) ... Removing systemd (260.1-1) ... Removing libsystemd-shared:amd64 (260.1-1) ... Removing libtasn1-6:amd64 (4.21.0-2+b1) ... Removing libtbbmalloc2:amd64 (2022.3.0-2) ... Removing libtensorpipe0:amd64 (0.0~git20250815.af0118d-1+b1) ... Removing libuv1t64:amd64 (1.51.0-2+b2) ... Removing libvulkan1:amd64 (1.4.341.0-1) ... Removing libxnvctrl0:amd64 (535.171.04-1+b3) ... Removing libyaml-0-2:amd64 (0.2.5-2+b1) ... Removing libz3-4:amd64 (4.13.3-1.1) ... Removing libze1:amd64 (1.28.2-2) ... Removing ocl-icd-libopencl1:amd64 (2.3.4-1+b1) ... Removing python3-pkg-resources (78.1.1-0.1) ... Removing python3-autocommand (2.2.2-4) ... Removing python3-certifi (2026.4.22+ds-1) ... Removing python3-chardet (5.2.0+dfsg-2) ... Removing python3-charset-normalizer (3.4.7-1) ... Removing python3-contourpy (1.3.3-1+b1) ... Removing python3-cycler (0.12.1-2) ... Removing python3-expecttest (0.3.0-1) ... Removing python3-hypothesis (6.152.4-1) ... Removing python3-dateutil (2.9.0-4) ... Removing python3-filelock (3.29.0-1) ... Removing python3-freetype (2.5.1-2) ... Removing python3-fsspec (2025.12.0-1) ... Removing python3-idna (3.11-1) ... Removing python3-inflect (7.5.0-1) ... Removing python3-pytest (9.0.3-1) ... Removing python3-iniconfig (2.1.0-2) ... Removing python3-jaraco.context (6.0.1-2) ... Removing python3-jaraco.functools (4.1.0-1) ... Removing python3-jinja2 (3.1.6-2) ... Removing python3-kiwisolver (1.5.0-1) ... Removing python3-llvmlite (0.47.0-0.1) ... Removing python3-markupsafe (3.0.3-1+b1) ... Removing python3-more-itertools (10.8.0-1) ... Removing python3-networkx (3.4.2-5) ... Removing python3-pyfaidx (0.8.1.3-2) ... Removing python3-packaging (26.0-1) ... Removing python3-pluggy (1.6.0-2) ... Removing python3-psutil (7.1.0-1) ... Removing python3-pygments (2.19.2+dfsg-1) ... Removing python3-pyparsing (3.3.2-2) ... Removing python3-pyproject-hooks (1.2.0-1) ... Removing python3-pytz (2025.2-6) ... Removing python3-six (1.17.0-2) ... Removing python3-sortedcontainers (2.4.0-2) ... Removing python3-threadpoolctl (3.1.0-1) ... Removing python3-typeguard (4.4.4-2) ... Removing python3-typing-extensions (4.15.0-2) ... Removing python3-urllib3 (2.6.3-2) ... Removing python3-zipp (3.23.0-1) ... Removing r-bioc-biocgenerics (0.52.0-3) ... Removing w3c-sgml-lib (1.3-3) ... Removing xml-core (0.20) ... Removing sgml-base (1.31+nmu1) ... Removing r-base-core (4.6.0-4) ... Removing ca-certificates (20260223) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpangocairo-1.0-0:amd64 (1.57.1-2) ... Removing libpangoft2-1.0-0:amd64 (1.57.1-2) ... Removing libpango-1.0-0:amd64 (1.57.1-2) ... Removing fontconfig (2.17.1-5) ... Removing libtk8.6:amd64 (8.6.18-1) ... Removing libxft2:amd64 (2.3.6-1+b5) ... Removing libcairo2:amd64 (1.18.4-3+b1) ... Removing libfontconfig1:amd64 (2.17.1-5) ... Removing fontconfig-config (2.17.1-5) ... Removing fonts-urw-base35 (20200910-9) ... Removing xfonts-utils (1:7.7+7) ... Removing libcurl4t64:amd64 (8.20.0-2) ... Removing libtirpc3t64:amd64 (1.3.7+ds-1) ... Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Removing libgssapi-krb5-2:amd64 (1.22.1-2.1) ... Removing libkrb5-3:amd64 (1.22.1-2.1) ... Removing libcom-err2:amd64 (1.47.4-1) ... Removing libthai0:amd64 (0.1.30-1+b1) ... Removing libdatrie1:amd64 (0.2.14-1+b1) ... Removing libtiff6:amd64 (4.7.1-2) ... Removing libdeflate0:amd64 (1.23-2+b2) ... Removing libfontenc1:amd64 (1:1.1.8-1+b3) ... Removing libfribidi0:amd64 (1.0.16-5+b1) ... Removing libgomp1:amd64 (16.1.0-1) ... Removing libxt6t64:amd64 (1:1.2.1-1.3+b2) ... Removing libsm6:amd64 (2:1.2.6-1+b2) ... Removing libice6:amd64 (2:1.1.1-1+b2) ... Removing libicu78:amd64 (78.3-2) ... Removing libpsl5t64:amd64 (0.21.5-1) ... Removing libidn2-0:amd64 (2.3.8-5) ... Removing libjbig0:amd64 (2.1-6.1+b3) ... Removing libjpeg62-turbo:amd64 (1:3.1.3-4) ... Removing libk5crypto3:amd64 (1.22.1-2.1) ... Removing libkeyutils1:amd64 (1.6.3-6+b2) ... Removing libkrb5support0:amd64 (1.22.1-2.1) ... Removing libldap2:amd64 (2.6.10+dfsg-1+b2) ... Removing liblerc4:amd64 (4.1.0+ds-1) ... Removing ucf (3.0053) ... Removing procps (2:4.0.4-9+b2) ... Removing libnghttp2-14:amd64 (1.69.0-1) ... Removing libnghttp3-9:amd64 (1.15.0-1) ... Removing libngtcp2-crypto-ossl0:amd64 (1.22.1-1) ... Removing libngtcp2-16:amd64 (1.22.1-1) ... Removing libpaper-utils (2.2.5-0.4) ... Removing libpaper2:amd64 (2.2.5-0.4) ... Removing libpixman-1-0:amd64 (0.46.4-1+b2) ... Removing libproc2-0:amd64 (2:4.0.4-9+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-11) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-11) ... Removing libwebp7:amd64 (1.5.0-0.1+b2) ... Removing libsharpyuv0:amd64 (1.5.0-0.1+b2) ... Removing libssh2-1t64:amd64 (1.11.1-3) ... Removing libtcl8.6:amd64 (8.6.18+dfsg-1) ... Removing libtext-wrapi18n-perl (0.06-11) ... Removing libtext-charwidth-perl:amd64 (0.04-12) ... Removing libthai-data (0.1.30-1) ... Removing libtirpc-common (1.3.7+ds-1) ... Removing libunistring5:amd64 (1.4.2-1) ... Removing libxss1:amd64 (1:1.2.3-1+b4) ... Removing libxrender1:amd64 (1:0.9.12-1+b2) ... Removing libxcb-shm0:amd64 (1.17.0-2+b2) ... Removing libxcb-render0:amd64 (1.17.0-2+b2) ... Removing libxext6:amd64 (2:1.3.4-1+b4) ... Removing openssl (3.6.2-1) ... Removing sensible-utils (0.0.26) ... Removing unzip (6.0-29) ... 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 xdg-utils (1.2.1-2) ... Removing zip (3.0-15) ... Removing libx11-6:amd64 (2:1.8.13-1) ... Removing libx11-data (2:1.8.13-1) ... Removing libxcb1:amd64 (1.17.0-2+b2) ... Removing libxau6:amd64 (1:1.0.11-1+b2) ... Removing libxdmcp6:amd64 (1:1.1.5-2+b1) ... Removing python3-fonttools (4.62.1-7) ... Removing python3-uharfbuzz (0.53.3-1+b1) ... Removing python3-scipy (1.16.3-4) ... Removing python3-numpy (1:2.4.4+ds-2) ... Removing liblapack3:amd64 (3.12.1-7+b2) ... Removing libblas3:amd64 (3.12.1-7+b2) ... Removing python3-lxml:amd64 (6.1.0-1) ... Removing libxslt1.1:amd64 (1.1.45-0.1) ... Removing libgcrypt20:amd64 (1.12.2-1) ... Removing libgfortran5:amd64 (16.1.0-1) ... Removing libgpg-error0:amd64 (1.61-2) ... Removing libharfbuzz-subset0:amd64 (12.3.2-2+b2) ... Removing libqhull-r8.0:amd64 (2020.2-9) ... Removing libxml2-16:amd64 (2.15.2+dfsg-0.1) ... Removing python3-zopfli (0.4.1-1) ... Removing libzopfli1 (1.0.3-3) ... Removing python3-brotli (1.2.0-3) ... Removing python3-decorator (5.2.1-2) ... Removing python3-lz4 (4.4.5+dfsg-1) ... Removing python3-sympy (1.14.0-3) ... Removing python3-mpmath (1.4.1-2) ... Removing python3-numpy-dev:amd64 (1:2.4.4+ds-2) ... Removing python3-unicodedata2 (17.0.1+ds-1) ... Removing unicode-data (17.0.0-2) ... Removing python3-ufolib2 (0.18.1+dfsg1-1) ... Removing libharfbuzz0b:amd64 (12.3.2-2+b2) ... Removing libglib2.0-0t64:amd64 (2.88.1-2) ... Removing libatomic1:amd64 (16.1.0-1) ... Removing libfreetype6:amd64 (2.14.3+dfsg-1) ... Removing libbrotli1:amd64 (1.2.0-3) ... Removing libgraphite2-3:amd64 (1.3.14-13) ... Removing libpng16-16t64:amd64 (1.6.58-1) ... Removing python3-attr (26.1.0-1) ... Removing python3 (3.13.9-3+b1) ... Removing python3.13 (3.13.12-1) ... Removing python3-minimal (3.13.9-3+b1) ... Removing python3.13-minimal (3.13.12-1) ... Removing libexpat1:amd64 (2.8.0-2) ... Removing libpython3-stdlib:amd64 (3.13.9-3+b1) ... Removing libpython3.13-stdlib:amd64 (3.13.12-1) ... find: '/usr/lib/python3': No such file or directory Removing libffi8:amd64 (3.5.2-4) ... Removing libncursesw6:amd64 (6.6+20251231-1+b1) ... Removing libpython3.13-minimal:amd64 (3.13.12-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8t64:amd64 (8.3-4) ... 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 (3.46.1-9+b1) ... Removing media-types (14.0.0) ... Removing netbase (6.5) ... Removing readline-common (8.3-4) ... Processing triggers for libc-bin (2.42-16) ... 3m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', 'remove', '--allow-remove-essential', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'ibverbs-providers:amd64', 'libabsl20260107:amd64', 'libamd-comgr3:amd64', 'libamdhip64-6:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libbenchmark1.9.1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libclang-common-21-dev:amd64', 'libcom-err2:amd64', 'libcpp-httplib0.41:amd64', 'libcpuinfo0:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libdnnl3.6:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libexpat1:amd64', 'libfabric1:amd64', 'libffi8:amd64', 'libfmt10:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libfuse3-4:amd64', 'libgav1-2:amd64', 'libgcrypt20:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgloo0', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz-subset0:amd64', 'libharfbuzz0b:amd64', 'libhiredis1.1.0:amd64', 'libhsa-runtime64-1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libice6:amd64', 'libicu78: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', 'libllvm21:amd64', 'libmunge2:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libonnx1l:amd64', 'libopenjp2-7:amd64', 'libopenmpi40:amd64', 'libp11-kit0:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper2:amd64', 'libpciaccess0:amd64', 'libpixman-1-0:amd64', 'libpmix2t64:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libprotobuf-lite32t64:amd64', 'libprotobuf32t64:amd64', 'libpsl5t64:amd64', 'libpsm2-2', 'libpthreadpool0:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'librdmacm1t64:amd64', 'libreadline8t64:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsleef3:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsvtav1enc4:amd64', 'libsystemd-shared:amd64', 'libtasn1-6:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libtensorpipe0:amd64', 'libtext-charwidth-perl:amd64', 'libtext-wrapi18n-perl', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtorch-test', 'libtorch2.12:amd64', 'libucc1:amd64', 'libucx0:amd64', 'libunistring5:amd64', 'libuv1t64:amd64', 'libvulkan1: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', 'libxnnpack0.20241108:amd64', 'libxnvctrl0:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libyaml-0-2:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'libze1:amd64', 'libzopfli1', 'media-types', 'netbase', 'ocl-icd-libopencl1:amd64', 'openssl', 'procps', 'python-matplotlib-data', 'python3', 'python3-apricot-select', 'python3-attr', 'python3-autocommand', 'python3-biopython', 'python3-brotli', 'python3-build', 'python3-cairo', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-expecttest', 'python3-filelock', 'python3-fonttools', 'python3-freetype', 'python3-fsspec', 'python3-hypothesis', 'python3-idna', 'python3-inflect', 'python3-iniconfig', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-jaraco.text', 'python3-jinja2', 'python3-joblib', 'python3-kiwisolver', 'python3-llvmlite', 'python3-lxml:amd64', 'python3-lz4', 'python3-markupsafe', 'python3-matplotlib', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-networkx', 'python3-numba', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pip', 'python3-pkg-resources', 'python3-pluggy', 'python3-pomegranate', 'python3-psutil', 'python3-pyfaidx', 'python3-pygments', 'python3-pyparsing', 'python3-pyproject-hooks', 'python3-pysam', 'python3-pytest', 'python3-pytz', 'python3-reportlab', 'python3-requests', 'python3-rlpycairo', 'python3-scipy', 'python3-setuptools', 'python3-six', 'python3-sklearn', 'python3-sklearn-lib:amd64', 'python3-sortedcontainers', 'python3-sympy', 'python3-threadpoolctl', 'python3-tk', 'python3-torch', 'python3-tqdm', 'python3-typeguard', 'python3-typing-extensions', 'python3-ufolib2', 'python3-uharfbuzz', 'python3-unicodedata2', 'python3-urllib3', 'python3-wheel', 'python3-yaml', 'python3-zipp', 'python3-zopfli', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'python3.14-tk', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-dnacopy', 'readline-common', 'sensible-utils', 'sgml-base', 'systemd', 'ucf', 'unicode-data', 'unzip', 'w3c-sgml-lib', 'x11-common', 'xdg-utils', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'zip', 'cnvkit'] 3m5.5s INFO: Running scripts post_remove 3m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_remove_exceptions'] 3m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_remove_exceptions'] 3m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'ibverbs-providers:amd64', 'libabsl20260107:amd64', 'libamd-comgr3:amd64', 'libamdhip64-6:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libbenchmark1.9.1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libclang-common-21-dev:amd64', 'libcom-err2:amd64', 'libcpp-httplib0.41:amd64', 'libcpuinfo0:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libdnnl3.6:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libexpat1:amd64', 'libfabric1:amd64', 'libffi8:amd64', 'libfmt10:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libfuse3-4:amd64', 'libgav1-2:amd64', 'libgcrypt20:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgloo0', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz-subset0:amd64', 'libharfbuzz0b:amd64', 'libhiredis1.1.0:amd64', 'libhsa-runtime64-1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libice6:amd64', 'libicu78: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', 'libllvm21:amd64', 'libmunge2:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libonnx1l:amd64', 'libopenjp2-7:amd64', 'libopenmpi40:amd64', 'libp11-kit0:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper2:amd64', 'libpciaccess0:amd64', 'libpixman-1-0:amd64', 'libpmix2t64:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libprotobuf-lite32t64:amd64', 'libprotobuf32t64:amd64', 'libpsl5t64:amd64', 'libpsm2-2', 'libpthreadpool0:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'librdmacm1t64:amd64', 'libreadline8t64:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsleef3:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsvtav1enc4:amd64', 'libsystemd-shared:amd64', 'libtasn1-6:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libtensorpipe0:amd64', 'libtext-charwidth-perl:amd64', 'libtext-wrapi18n-perl', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtorch-test', 'libtorch2.12:amd64', 'libucc1:amd64', 'libucx0:amd64', 'libunistring5:amd64', 'libuv1t64:amd64', 'libvulkan1: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', 'libxnnpack0.20241108:amd64', 'libxnvctrl0:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libyaml-0-2:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'libze1:amd64', 'libzopfli1', 'media-types', 'netbase', 'ocl-icd-libopencl1:amd64', 'openssl', 'procps', 'python-matplotlib-data', 'python3', 'python3-apricot-select', 'python3-attr', 'python3-autocommand', 'python3-biopython', 'python3-brotli', 'python3-build', 'python3-cairo', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-expecttest', 'python3-filelock', 'python3-fonttools', 'python3-freetype', 'python3-fsspec', 'python3-hypothesis', 'python3-idna', 'python3-inflect', 'python3-iniconfig', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-jaraco.text', 'python3-jinja2', 'python3-joblib', 'python3-kiwisolver', 'python3-llvmlite', 'python3-lxml:amd64', 'python3-lz4', 'python3-markupsafe', 'python3-matplotlib', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-networkx', 'python3-numba', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pip', 'python3-pkg-resources', 'python3-pluggy', 'python3-pomegranate', 'python3-psutil', 'python3-pyfaidx', 'python3-pygments', 'python3-pyparsing', 'python3-pyproject-hooks', 'python3-pysam', 'python3-pytest', 'python3-pytz', 'python3-reportlab', 'python3-requests', 'python3-rlpycairo', 'python3-scipy', 'python3-setuptools', 'python3-six', 'python3-sklearn', 'python3-sklearn-lib:amd64', 'python3-sortedcontainers', 'python3-sympy', 'python3-threadpoolctl', 'python3-tk', 'python3-torch', 'python3-tqdm', 'python3-typeguard', 'python3-typing-extensions', 'python3-ufolib2', 'python3-uharfbuzz', 'python3-unicodedata2', 'python3-urllib3', 'python3-wheel', 'python3-yaml', 'python3-zipp', 'python3-zopfli', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'python3.14-tk', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-dnacopy', 'readline-common', 'sensible-utils', 'sgml-base', 'systemd', 'ucf', 'unicode-data', 'unzip', 'w3c-sgml-lib', 'x11-common', 'xdg-utils', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'zip'] 3m6.2s DUMP: (Reading database ... 5009 files and directories currently installed.) Purging configuration files for ca-certificates (20260223) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for fontconfig (2.17.1-5) ... Purging configuration files for fontconfig-config (2.17.1-5) ... Purging configuration files for fonts-dejavu-core (2.37-9) ... dpkg: warning: ignoring request to remove fonts-dejavu-extra which is not installed Purging configuration files for fonts-dejavu-mono (2.37-9) ... dpkg: warning: ignoring request to remove fonts-lyx which is not installed Purging configuration files for fonts-urw-base35 (20200910-9) ... Purging configuration files for ibverbs-providers:amd64 (63.0-1) ... dpkg: warning: ignoring request to remove libabsl20260107 which is not installed dpkg: warning: ignoring request to remove libamd-comgr3 which is not installed dpkg: warning: ignoring request to remove libamdhip64-6 which is not installed dpkg: warning: ignoring request to remove libaom3 which is not installed dpkg: warning: ignoring request to remove libatomic1 which is not installed dpkg: warning: ignoring request to remove libavif16 which is not installed dpkg: warning: ignoring request to remove libbenchmark1.9.1 which is not installed dpkg: warning: ignoring request to remove libblas3 which is not installed dpkg: warning: ignoring request to remove libbrotli1 which is not installed dpkg: warning: ignoring request to remove libcairo2 which is not installed dpkg: warning: ignoring request to remove libclang-common-21-dev which is not installed dpkg: warning: ignoring request to remove libcom-err2 which is not installed dpkg: warning: ignoring request to remove libcpp-httplib0.41 which is not installed dpkg: warning: ignoring request to remove libcpuinfo0 which is not installed dpkg: warning: ignoring request to remove libcurl3t64-gnutls which is not installed dpkg: warning: ignoring request to remove libcurl4t64 which is not installed dpkg: warning: ignoring request to remove libdatrie1 which is not installed dpkg: warning: ignoring request to remove libdav1d7 which is not installed dpkg: warning: ignoring request to remove libdeflate0 which is not installed dpkg: warning: ignoring request to remove libdnnl3.6 which is not installed dpkg: warning: ignoring request to remove libdrm-amdgpu1 which is not installed dpkg: warning: ignoring request to remove libdrm-common which is not installed dpkg: warning: ignoring request to remove libdrm2 which is not installed dpkg: warning: ignoring request to remove libedit2 which is not installed dpkg: warning: ignoring request to remove libelf1t64 which is not installed dpkg: warning: ignoring request to remove libevent-core-2.1-7t64 which is not installed dpkg: warning: ignoring request to remove libevent-pthreads-2.1-7t64 which is not installed dpkg: warning: ignoring request to remove libexpat1 which is not installed dpkg: warning: ignoring request to remove libfabric1 which is not installed dpkg: warning: ignoring request to remove libffi8 which is not installed dpkg: warning: ignoring request to remove libfmt10 which is not installed dpkg: warning: ignoring request to remove libfontconfig1 which is not installed dpkg: warning: ignoring request to remove libfontenc1 which is not installed dpkg: warning: ignoring request to remove libfreetype6 which is not installed dpkg: warning: ignoring request to remove libfribidi0 which is not installed dpkg: warning: ignoring request to remove libfuse3-4 which is not installed dpkg: warning: ignoring request to remove libgav1-2 which is not installed dpkg: warning: ignoring request to remove libgcrypt20 which is not installed dpkg: warning: ignoring request to remove libgfortran5 which is not installed Purging configuration files for libglib2.0-0t64:amd64 (2.88.1-2) ... dpkg: warning: ignoring request to remove libgloo0 which is not installed dpkg: warning: ignoring request to remove libgnutls30t64 which is not installed dpkg: warning: ignoring request to remove libgomp1 which is not installed dpkg: warning: ignoring request to remove libgpg-error0 which is not installed dpkg: warning: ignoring request to remove libgraphite2-3 which is not installed Purging configuration files for libgssapi-krb5-2:amd64 (1.22.1-2.1) ... dpkg: warning: ignoring request to remove libharfbuzz-subset0 which is not installed dpkg: warning: ignoring request to remove libharfbuzz0b which is not installed dpkg: warning: ignoring request to remove libhiredis1.1.0 which is not installed dpkg: warning: ignoring request to remove libhsa-runtime64-1 which is not installed dpkg: warning: ignoring request to remove libhts3t64 which is not installed dpkg: warning: ignoring request to remove libhtscodecs2 which is not installed dpkg: warning: ignoring request to remove libhwloc-plugins which is not installed dpkg: warning: ignoring request to remove libhwloc15 which is not installed dpkg: warning: ignoring request to remove libibmad5 which is not installed dpkg: warning: ignoring request to remove libibumad3 which is not installed dpkg: warning: ignoring request to remove libibverbs1 which is not installed dpkg: warning: ignoring request to remove libice6 which is not installed dpkg: warning: ignoring request to remove libicu78 which is not installed dpkg: warning: ignoring request to remove libidn2-0 which is not installed dpkg: warning: ignoring request to remove libimagequant0 which is not installed dpkg: warning: ignoring request to remove libjbig0 which is not installed dpkg: warning: ignoring request to remove libjpeg62-turbo which is not installed dpkg: warning: ignoring request to remove libk5crypto3 which is not installed dpkg: warning: ignoring request to remove libkeyutils1 which is not installed dpkg: warning: ignoring request to remove libkrb5-3 which is not installed dpkg: warning: ignoring request to remove libkrb5support0 which is not installed dpkg: warning: ignoring request to remove liblapack3 which is not installed dpkg: warning: ignoring request to remove liblcms2-2 which is not installed dpkg: warning: ignoring request to remove libldap2 which is not installed dpkg: warning: ignoring request to remove liblerc4 which is not installed dpkg: warning: ignoring request to remove libllvm21 which is not installed dpkg: warning: ignoring request to remove libmunge2 which is not installed dpkg: warning: ignoring request to remove libncursesw6 which is not installed dpkg: warning: ignoring request to remove libnghttp2-14 which is not installed dpkg: warning: ignoring request to remove libnghttp3-9 which is not installed dpkg: warning: ignoring request to remove libngtcp2-16 which is not installed dpkg: warning: ignoring request to remove libngtcp2-crypto-gnutls8 which is not installed dpkg: warning: ignoring request to remove libngtcp2-crypto-ossl0 which is not installed Purging configuration files for libnl-3-200:amd64 (3.12.0-2+b1) ... dpkg: warning: ignoring request to remove libnl-route-3-200 which is not installed dpkg: warning: ignoring request to remove libnuma1 which is not installed dpkg: warning: ignoring request to remove libonnx1l which is not installed dpkg: warning: ignoring request to remove libopenjp2-7 which is not installed dpkg: warning: ignoring request to remove libopenmpi40 which is not installed dpkg: warning: ignoring request to remove libp11-kit0 which is not installed dpkg: warning: ignoring request to remove libpango-1.0-0 which is not installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which is not installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which is not installed dpkg: warning: ignoring request to remove libpaper-utils which is not installed Purging configuration files for libpaper2:amd64 (2.2.5-0.4) ... dpkg: warning: ignoring request to remove libpciaccess0 which is not installed dpkg: warning: ignoring request to remove libpixman-1-0 which is not installed dpkg: warning: ignoring request to remove libpmix2t64 which is not installed dpkg: warning: ignoring request to remove libpng16-16t64 which is not installed dpkg: warning: ignoring request to remove libproc2-0 which is not installed dpkg: warning: ignoring request to remove libprotobuf-lite32t64 which is not installed dpkg: warning: ignoring request to remove libprotobuf32t64 which is not installed dpkg: warning: ignoring request to remove libpsl5t64 which is not installed dpkg: warning: ignoring request to remove libpsm2-2 which is not installed dpkg: warning: ignoring request to remove libpthreadpool0 which is not installed dpkg: warning: ignoring request to remove libpython3-stdlib which is not installed Purging configuration files for libpython3.13-minimal:amd64 (3.13.12-1) ... dpkg: warning: ignoring request to remove libpython3.13-stdlib which is not installed dpkg: warning: ignoring request to remove libqhull-r8.0 which is not installed dpkg: warning: ignoring request to remove libraqm0 which is not installed dpkg: warning: ignoring request to remove librav1e0.8 which is not installed dpkg: warning: ignoring request to remove librdmacm1t64 which is not installed Purging configuration files for libreadline8t64:amd64 (8.3-4) ... dpkg: warning: ignoring request to remove libsasl2-2 which is not installed dpkg: warning: ignoring request to remove libsasl2-modules-db which is not installed dpkg: warning: ignoring request to remove libsharpyuv0 which is not installed dpkg: warning: ignoring request to remove libsleef3 which is not installed dpkg: warning: ignoring request to remove libsm6 which is not installed dpkg: warning: ignoring request to remove libsqlite3-0 which is not installed dpkg: warning: ignoring request to remove libssh2-1t64 which is not installed dpkg: warning: ignoring request to remove libsvtav1enc4 which is not installed dpkg: warning: ignoring request to remove libsystemd-shared which is not installed dpkg: warning: ignoring request to remove libtasn1-6 which is not installed dpkg: warning: ignoring request to remove libtbb12 which is not installed dpkg: warning: ignoring request to remove libtbbbind-2-5 which is not installed dpkg: warning: ignoring request to remove libtbbmalloc2 which is not installed dpkg: warning: ignoring request to remove libtcl8.6 which is not installed dpkg: warning: ignoring request to remove libtensorpipe0 which is not installed dpkg: warning: ignoring request to remove libtext-charwidth-perl which is not installed dpkg: warning: ignoring request to remove libtext-wrapi18n-perl which is not installed dpkg: warning: ignoring request to remove libthai-data which is not installed dpkg: warning: ignoring request to remove libthai0 which is not installed dpkg: warning: ignoring request to remove libtiff6 which is not installed Purging configuration files for libtirpc-common (1.3.7+ds-1) ... Purging configuration files for libtirpc3t64:amd64 (1.3.7+ds-1) ... dpkg: warning: ignoring request to remove libtk8.6 which is not installed dpkg: warning: ignoring request to remove libtorch-test which is not installed dpkg: warning: ignoring request to remove libtorch2.12 which is not installed dpkg: warning: ignoring request to remove libucc1 which is not installed dpkg: warning: ignoring request to remove libucx0 which is not installed dpkg: warning: ignoring request to remove libunistring5 which is not installed dpkg: warning: ignoring request to remove libuv1t64 which is not installed dpkg: warning: ignoring request to remove libvulkan1 which is not installed dpkg: warning: ignoring request to remove libwebp7 which is not installed dpkg: warning: ignoring request to remove libwebpdemux2 which is not installed dpkg: warning: ignoring request to remove libwebpmux3 which is not installed dpkg: warning: ignoring request to remove libx11-6 which is not installed dpkg: warning: ignoring request to remove libx11-data which is not installed dpkg: warning: ignoring request to remove libxau6 which is not installed dpkg: warning: ignoring request to remove libxcb-render0 which is not installed dpkg: warning: ignoring request to remove libxcb-shm0 which is not installed dpkg: warning: ignoring request to remove libxcb1 which is not installed dpkg: warning: ignoring request to remove libxdmcp6 which is not installed dpkg: warning: ignoring request to remove libxext6 which is not installed dpkg: warning: ignoring request to remove libxft2 which is not installed dpkg: warning: ignoring request to remove libxml2-16 which is not installed dpkg: warning: ignoring request to remove libxnnpack0.20241108 which is not installed dpkg: warning: ignoring request to remove libxnvctrl0 which is not installed dpkg: warning: ignoring request to remove libxrender1 which is not installed dpkg: warning: ignoring request to remove libxslt1.1 which is not installed dpkg: warning: ignoring request to remove libxss1 which is not installed dpkg: warning: ignoring request to remove libxt6t64 which is not installed dpkg: warning: ignoring request to remove libyaml-0-2 which is not installed dpkg: warning: ignoring request to remove libyuv0 which is not installed dpkg: warning: ignoring request to remove libz3-4 which is not installed dpkg: warning: ignoring request to remove libze1 which is not installed dpkg: warning: ignoring request to remove libzopfli1 which is not installed Purging configuration files for media-types (14.0.0) ... Purging configuration files for netbase (6.5) ... dpkg: warning: ignoring request to remove ocl-icd-libopencl1 which is not installed Purging configuration files for openssl (3.6.2-1) ... Purging configuration files for procps (2:4.0.4-9+b2) ... Purging configuration files for python-matplotlib-data (3.10.7+dfsg1-4) ... Purging configuration files for python3 (3.13.9-3+b1) ... dpkg: warning: ignoring request to remove python3-apricot-select which is not installed dpkg: warning: ignoring request to remove python3-attr which is not installed dpkg: warning: ignoring request to remove python3-autocommand which is not installed dpkg: warning: ignoring request to remove python3-biopython which is not installed dpkg: warning: ignoring request to remove python3-brotli which is not installed dpkg: warning: ignoring request to remove python3-build which is not installed dpkg: warning: ignoring request to remove python3-cairo which is not installed dpkg: warning: ignoring request to remove python3-certifi which is not installed dpkg: warning: ignoring request to remove python3-chardet which is not installed dpkg: warning: ignoring request to remove python3-charset-normalizer which is not installed dpkg: warning: ignoring request to remove python3-contourpy which is not installed dpkg: warning: ignoring request to remove python3-cycler which is not installed dpkg: warning: ignoring request to remove python3-dateutil which is not installed dpkg: warning: ignoring request to remove python3-decorator which is not installed dpkg: warning: ignoring request to remove python3-expecttest which is not installed dpkg: warning: ignoring request to remove python3-filelock which is not installed dpkg: warning: ignoring request to remove python3-fonttools which is not installed dpkg: warning: ignoring request to remove python3-freetype which is not installed dpkg: warning: ignoring request to remove python3-fsspec which is not installed dpkg: warning: ignoring request to remove python3-hypothesis which is not installed dpkg: warning: ignoring request to remove python3-idna which is not installed dpkg: warning: ignoring request to remove python3-inflect which is not installed dpkg: warning: ignoring request to remove python3-iniconfig which is not installed dpkg: warning: ignoring request to remove python3-jaraco.context which is not installed dpkg: warning: ignoring request to remove python3-jaraco.functools which is not installed dpkg: warning: ignoring request to remove python3-jaraco.text which is not installed dpkg: warning: ignoring request to remove python3-jinja2 which is not installed dpkg: warning: ignoring request to remove python3-joblib which is not installed dpkg: warning: ignoring request to remove python3-kiwisolver which is not installed dpkg: warning: ignoring request to remove python3-llvmlite which is not installed dpkg: warning: ignoring request to remove python3-lxml which is not installed dpkg: warning: ignoring request to remove python3-lz4 which is not installed dpkg: warning: ignoring request to remove python3-markupsafe which is not installed dpkg: warning: ignoring request to remove python3-matplotlib which is not installed dpkg: warning: ignoring request to remove python3-minimal which is not installed dpkg: warning: ignoring request to remove python3-more-itertools which is not installed dpkg: warning: ignoring request to remove python3-mpmath which is not installed dpkg: warning: ignoring request to remove python3-networkx which is not installed dpkg: warning: ignoring request to remove python3-numba which is not installed Purging configuration files for python3-numpy (1:2.4.4+ds-2) ... dpkg: warning: ignoring request to remove python3-numpy-dev which is not installed dpkg: warning: ignoring request to remove python3-packaging which is not installed dpkg: warning: ignoring request to remove python3-pandas which is not installed dpkg: warning: ignoring request to remove python3-pandas-lib which is not installed dpkg: warning: ignoring request to remove python3-pil which is not installed dpkg: warning: ignoring request to remove python3-pil.imagetk which is not installed dpkg: warning: ignoring request to remove python3-pip which is not installed dpkg: warning: ignoring request to remove python3-pkg-resources which is not installed dpkg: warning: ignoring request to remove python3-pluggy which is not installed dpkg: warning: ignoring request to remove python3-pomegranate which is not installed dpkg: warning: ignoring request to remove python3-psutil which is not installed dpkg: warning: ignoring request to remove python3-pyfaidx which is not installed dpkg: warning: ignoring request to remove python3-pygments which is not installed dpkg: warning: ignoring request to remove python3-pyparsing which is not installed dpkg: warning: ignoring request to remove python3-pyproject-hooks which is not installed dpkg: warning: ignoring request to remove python3-pysam which is not installed dpkg: warning: ignoring request to remove python3-pytest which is not installed dpkg: warning: ignoring request to remove python3-pytz which is not installed dpkg: warning: ignoring request to remove python3-reportlab which is not installed dpkg: warning: ignoring request to remove python3-requests which is not installed dpkg: warning: ignoring request to remove python3-rlpycairo which is not installed dpkg: warning: ignoring request to remove python3-scipy which is not installed dpkg: warning: ignoring request to remove python3-setuptools which is not installed dpkg: warning: ignoring request to remove python3-six which is not installed dpkg: warning: ignoring request to remove python3-sklearn which is not installed dpkg: warning: ignoring request to remove python3-sklearn-lib which is not installed dpkg: warning: ignoring request to remove python3-sortedcontainers which is not installed Purging configuration files for python3-sympy (1.14.0-3) ... dpkg: warning: ignoring request to remove python3-threadpoolctl which is not installed dpkg: warning: ignoring request to remove python3-tk which is not installed dpkg: warning: ignoring request to remove python3-torch which is not installed dpkg: warning: ignoring request to remove python3-tqdm which is not installed dpkg: warning: ignoring request to remove python3-typeguard which is not installed dpkg: warning: ignoring request to remove python3-typing-extensions which is not installed dpkg: warning: ignoring request to remove python3-ufolib2 which is not installed dpkg: warning: ignoring request to remove python3-uharfbuzz which is not installed dpkg: warning: ignoring request to remove python3-unicodedata2 which is not installed dpkg: warning: ignoring request to remove python3-urllib3 which is not installed dpkg: warning: ignoring request to remove python3-wheel which is not installed dpkg: warning: ignoring request to remove python3-yaml which is not installed dpkg: warning: ignoring request to remove python3-zipp which is not installed dpkg: warning: ignoring request to remove python3-zopfli which is not installed dpkg: warning: ignoring request to remove python3.13 which is not installed Purging configuration files for python3.13-minimal (3.13.12-1) ... dpkg: warning: ignoring request to remove python3.13-tk which is not installed dpkg: warning: ignoring request to remove python3.14-tk which is not installed Purging configuration files for r-base-core (4.6.0-4) ... dpkg: warning: ignoring request to remove r-bioc-biocgenerics which is not installed dpkg: warning: ignoring request to remove r-bioc-dnacopy which is not installed Purging configuration files for readline-common (8.3-4) ... dpkg: warning: ignoring request to remove sensible-utils which is not installed Purging configuration files for sgml-base (1.31+nmu1) ... Purging configuration files for systemd (260.1-1) ... Purging configuration files for ucf (3.0053) ... dpkg: warning: ignoring request to remove unicode-data which is not installed dpkg: warning: ignoring request to remove unzip which is not 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 xdg-utils which is not installed dpkg: warning: ignoring request to remove xfonts-encodings which is not installed Purging configuration files for xfonts-utils (1:7.7+7) ... Purging configuration files for xml-core (0.20) ... dpkg: warning: ignoring request to remove zip which is not installed 3m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-dejavu-mono', 'fonts-lyx', 'fonts-urw-base35', 'ibverbs-providers:amd64', 'libabsl20260107:amd64', 'libamd-comgr3:amd64', 'libamdhip64-6:amd64', 'libaom3:amd64', 'libatomic1:amd64', 'libavif16:amd64', 'libbenchmark1.9.1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libclang-common-21-dev:amd64', 'libcom-err2:amd64', 'libcpp-httplib0.41:amd64', 'libcpuinfo0:amd64', 'libcurl3t64-gnutls:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdav1d7:amd64', 'libdeflate0:amd64', 'libdnnl3.6:amd64', 'libdrm-amdgpu1:amd64', 'libdrm-common', 'libdrm2:amd64', 'libedit2:amd64', 'libelf1t64:amd64', 'libevent-core-2.1-7t64:amd64', 'libevent-pthreads-2.1-7t64:amd64', 'libexpat1:amd64', 'libfabric1:amd64', 'libffi8:amd64', 'libfmt10:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libfuse3-4:amd64', 'libgav1-2:amd64', 'libgcrypt20:amd64', 'libgfortran5:amd64', 'libglib2.0-0t64:amd64', 'libgloo0', 'libgnutls30t64:amd64', 'libgomp1:amd64', 'libgpg-error0:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz-subset0:amd64', 'libharfbuzz0b:amd64', 'libhiredis1.1.0:amd64', 'libhsa-runtime64-1:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libhwloc-plugins:amd64', 'libhwloc15:amd64', 'libibmad5:amd64', 'libibumad3:amd64', 'libibverbs1:amd64', 'libice6:amd64', 'libicu78: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', 'libllvm21:amd64', 'libmunge2:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libngtcp2-crypto-ossl0:amd64', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnuma1:amd64', 'libonnx1l:amd64', 'libopenjp2-7:amd64', 'libopenmpi40:amd64', 'libp11-kit0:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper2:amd64', 'libpciaccess0:amd64', 'libpixman-1-0:amd64', 'libpmix2t64:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libprotobuf-lite32t64:amd64', 'libprotobuf32t64:amd64', 'libpsl5t64:amd64', 'libpsm2-2', 'libpthreadpool0:amd64', 'libpython3-stdlib:amd64', 'libpython3.13-minimal:amd64', 'libpython3.13-stdlib:amd64', 'libqhull-r8.0:amd64', 'libraqm0:amd64', 'librav1e0.8:amd64', 'librdmacm1t64:amd64', 'libreadline8t64:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsleef3:amd64', 'libsm6:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libsvtav1enc4:amd64', 'libsystemd-shared:amd64', 'libtasn1-6:amd64', 'libtbb12:amd64', 'libtbbbind-2-5:amd64', 'libtbbmalloc2:amd64', 'libtcl8.6:amd64', 'libtensorpipe0:amd64', 'libtext-charwidth-perl:amd64', 'libtext-wrapi18n-perl', 'libthai-data', 'libthai0:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libtk8.6:amd64', 'libtorch-test', 'libtorch2.12:amd64', 'libucc1:amd64', 'libucx0:amd64', 'libunistring5:amd64', 'libuv1t64:amd64', 'libvulkan1: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', 'libxnnpack0.20241108:amd64', 'libxnvctrl0:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'libyaml-0-2:amd64', 'libyuv0:amd64', 'libz3-4:amd64', 'libze1:amd64', 'libzopfli1', 'media-types', 'netbase', 'ocl-icd-libopencl1:amd64', 'openssl', 'procps', 'python-matplotlib-data', 'python3', 'python3-apricot-select', 'python3-attr', 'python3-autocommand', 'python3-biopython', 'python3-brotli', 'python3-build', 'python3-cairo', 'python3-certifi', 'python3-chardet', 'python3-charset-normalizer', 'python3-contourpy', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-expecttest', 'python3-filelock', 'python3-fonttools', 'python3-freetype', 'python3-fsspec', 'python3-hypothesis', 'python3-idna', 'python3-inflect', 'python3-iniconfig', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-jaraco.text', 'python3-jinja2', 'python3-joblib', 'python3-kiwisolver', 'python3-llvmlite', 'python3-lxml:amd64', 'python3-lz4', 'python3-markupsafe', 'python3-matplotlib', 'python3-minimal', 'python3-more-itertools', 'python3-mpmath', 'python3-networkx', 'python3-numba', 'python3-numpy', 'python3-numpy-dev:amd64', 'python3-packaging', 'python3-pandas', 'python3-pandas-lib:amd64', 'python3-pil:amd64', 'python3-pil.imagetk:amd64', 'python3-pip', 'python3-pkg-resources', 'python3-pluggy', 'python3-pomegranate', 'python3-psutil', 'python3-pyfaidx', 'python3-pygments', 'python3-pyparsing', 'python3-pyproject-hooks', 'python3-pysam', 'python3-pytest', 'python3-pytz', 'python3-reportlab', 'python3-requests', 'python3-rlpycairo', 'python3-scipy', 'python3-setuptools', 'python3-six', 'python3-sklearn', 'python3-sklearn-lib:amd64', 'python3-sortedcontainers', 'python3-sympy', 'python3-threadpoolctl', 'python3-tk', 'python3-torch', 'python3-tqdm', 'python3-typeguard', 'python3-typing-extensions', 'python3-ufolib2', 'python3-uharfbuzz', 'python3-unicodedata2', 'python3-urllib3', 'python3-wheel', 'python3-yaml', 'python3-zipp', 'python3-zopfli', 'python3.13', 'python3.13-minimal', 'python3.13-tk', 'python3.14-tk', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-dnacopy', 'readline-common', 'sensible-utils', 'sgml-base', 'systemd', 'ucf', 'unicode-data', 'unzip', 'w3c-sgml-lib', 'x11-common', 'xdg-utils', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'zip'] 3m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg', '--purge', 'cnvkit'] 3m6.2s DUMP: dpkg: warning: ignoring request to remove cnvkit which is not installed 3m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg', '--purge', 'cnvkit'] 3m6.2s INFO: Running scripts post_purge 3m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_purge_exceptions'] 3m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_purge_exceptions'] 3m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg', '--purge', '--pending'] 3m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg', '--purge', '--pending'] 3m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg', '--remove', '--pending'] 3m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg', '--remove', '--pending'] 3m6.2s INFO: Running scripts post_test 3m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_test_exceptions'] 3m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'tmp/scripts/post_test_exceptions'] 3m6.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 3m6.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 3m6.6s INFO: IGNORED broken symlink: /etc/vconsole.conf (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m6.6s INFO: IGNORED broken symlink: /etc/default/locale (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m6.8s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Journal (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 3m6.8s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Manager (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 3m6.8s INFO: IGNORED broken symlink: /run/varlink/registry/io.systemd.Unit (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 3m6.8s ERROR: WARN: Broken symlinks: /etc/systemd/system/autovt@.service -> /usr/lib/systemd/system/getty@.service 3m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg-divert', '--list'] 3m6.8s 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 3m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'dpkg-divert', '--list'] 3m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', 'clean'] 3m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp78sc09w_', 'apt-get', 'clean'] 3m6.9s DEBUG: Recording chroot state 3m7.6s INFO: IGNORED PATH@1: /var/lib/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 3m7.6s INFO: IGNORED PATH@1: /var/lib/systemd/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.6s INFO: IGNORED PATH@1: /var/cache/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 3m7.6s INFO: IGNORED PATH@1: /var/log/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 3m7.6s INFO: IGNORED PATH@1: /var/spool/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 3m7.6s INFO: IGNORED PATH@1: /etc/issue (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.6s INFO: IGNORED PATH@1: /etc/nsswitch.conf (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.6s INFO: IGNORED PATH@1: /etc/pam.d/ (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.8s INFO: IGNORED PATH@1: /root/ (flag d- systemd-tmpfiles snippet /usr/lib/tmpfiles.d/provision.conf) 3m7.8s INFO: IGNORED PATH@1: /run/lock/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.8s INFO: IGNORED PATH@2: /var/lib/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 3m7.8s INFO: IGNORED PATH@2: /var/lib/private/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.8s INFO: IGNORED PATH@2: /var/lib/systemd/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.8s INFO: IGNORED PATH@2: /var/cache/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 3m7.8s INFO: IGNORED PATH@2: /var/cache/private/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.8s INFO: IGNORED PATH@2: /var/log/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 3m7.8s INFO: IGNORED PATH@2: /var/log/private/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.8s INFO: IGNORED PATH@2: /var/spool/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/var.conf) 3m7.8s INFO: IGNORED PATH@2: /etc/vconsole.conf (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.8s INFO: IGNORED PATH@2: /etc/issue (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.8s INFO: IGNORED PATH@2: /etc/nsswitch.conf (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.8s INFO: IGNORED PATH@2: /etc/default/locale (flag L+ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.8s INFO: IGNORED PATH@2: /etc/pam.d/ (flag C! systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.9s INFO: IGNORED PATH@2: /root/ (flag d- systemd-tmpfiles snippet /usr/lib/tmpfiles.d/provision.conf) 3m7.9s INFO: IGNORED PATH@2: /root/.ssh/ (flag d- systemd-tmpfiles snippet /usr/lib/tmpfiles.d/provision.conf) 3m7.9s INFO: IGNORED PATH@2: /run/log/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.9s INFO: IGNORED PATH@2: /run/user/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/dissect-root/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/shutdown/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/machines/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/users/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/sessions/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/seats/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/ask-password/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/netif/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd-network.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/netif/leases/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd-network.conf) 3m7.9s INFO: IGNORED PATH@2: /run/systemd/netif/links/ (flag d$ systemd-tmpfiles snippet /usr/lib/tmpfiles.d/systemd-network.conf) 3m7.9s INFO: IGNORED PATH@2: /run/sendsigs.omit.d/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.9s INFO: IGNORED PATH@2: /run/varlink/registry/io.systemd.Journal (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 3m7.9s INFO: IGNORED PATH@2: /run/varlink/registry/io.systemd.Manager (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 3m7.9s INFO: IGNORED PATH@2: /run/varlink/registry/io.systemd.Unit (flag L systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-varlink.conf) 3m7.9s INFO: IGNORED PATH@2: /run/sshd/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/20-systemd-ssh-generator.conf) 3m7.9s INFO: IGNORED PATH@2: /run/lock/ (flag d systemd-tmpfiles snippet /usr/lib/tmpfiles.d/debian.conf) 3m7.9s INFO: Warning: Package purging left files on system: /etc/systemd/system/autovt@.service -> /usr/lib/systemd/system/getty@.service not owned 3m7.9s INFO: PASS: Installation and purging test. 3m8.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/shm'] 3m8.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/shm'] 3m8.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/console'] 3m8.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/console'] 3m8.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/ptmx'] 3m8.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/ptmx'] 3m8.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/pts'] 3m8.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/dev/pts'] 3m8.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/proc'] 3m8.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp78sc09w_/proc'] 3m8.4s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 3m8.5s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp78sc09w_'] 3m8.5s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp78sc09w_ 3m8.5s INFO: PASS: All tests. 3m8.5s INFO: piuparts run ends. ret=0 End: 2026-05-18 21:40:15 GMT